minimap2 →
2.24+dfsg-2 →
armhf → 2022-03-14 05:31:22
sbuild (Debian sbuild) 0.72.0 (25 Oct 2016) on mb-lxc-01
+==============================================================================+
| minimap2 2.24+dfsg-2 (armhf) Mon, 14 Mar 2022 05:05:31 +0000 |
+==============================================================================+
Package: minimap2
Version: 2.24+dfsg-2
Source Version: 2.24+dfsg-2
Distribution: bookworm-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/bookworm-staging-armhf-sbuild-5b6cd59d-44cd-4c8d-84f1-133f11daab93' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.4.1/private bookworm-staging InRelease [11.3 kB]
Get:2 http://172.17.4.1/private bookworm-staging/main Sources [12.9 MB]
Get:3 http://172.17.4.1/private bookworm-staging/main armhf Packages [13.8 MB]
Fetched 26.7 MB in 10s (2730 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'minimap2' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/minimap2.git
Please use:
git clone https://salsa.debian.org/med-team/minimap2.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 209 kB of source archives.
Get:1 http://172.17.4.1/private bookworm-staging/main minimap2 2.24+dfsg-2 (dsc) [2316 B]
Get:2 http://172.17.4.1/private bookworm-staging/main minimap2 2.24+dfsg-2 (tar) [195 kB]
Get:3 http://172.17.4.1/private bookworm-staging/main minimap2 2.24+dfsg-2 (diff) [11.2 kB]
Fetched 209 kB in 0s (4068 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/minimap2-CiTrSx/minimap2-2.24+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/minimap2-CiTrSx' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| Install build-essential |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<<BUILDDIR>>/resolver-LQ0w1G/apt_archive/sbuild-build-depends-core-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy
dpkg-scanpackages: info: Wrote 1 entries to output Packages file.
gpg: keybox '/<<BUILDDIR>>/resolver-LQ0w1G/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-LQ0w1G/gpg/trustdb.gpg: trustdb created
gpg: key 37145E60F90AF620: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg: imported: 1
gpg: key 37145E60F90AF620: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 37145E60F90AF620: secret key imported
gpg: Total number processed: 1
gpg: unchanged: 1
gpg: secret keys read: 1
gpg: secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-LQ0w1G/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-LQ0w1G/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-LQ0w1G/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-LQ0w1G/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-LQ0w1G/apt_archive ./ Packages [433 B]
Fetched 2109 B in 0s (9738 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install core build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
libperl5.32 netbase perl-modules-5.32 sensible-utils
Use 'apt autoremove' to remove them.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 30 not upgraded.
Need to get 852 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-LQ0w1G/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 852 B in 0s (59.3 kB/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 14451 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 13), python3-setuptools, dh-python, cython3, python3-all-dev, d-shlibs, zlib1g-dev, texlive-latex-extra, texlive-science, texlive-font-utils, ghostscript, gnuplot, libsimde-dev
Filtered Build-Depends: debhelper-compat (= 13), python3-setuptools, dh-python, cython3, python3-all-dev, d-shlibs, zlib1g-dev, texlive-latex-extra, texlive-science, texlive-font-utils, ghostscript, gnuplot, libsimde-dev
dpkg-deb: building package 'sbuild-build-depends-minimap2-dummy' in '/<<BUILDDIR>>/resolver-LQ0w1G/apt_archive/sbuild-build-depends-minimap2-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-minimap2-dummy
dpkg-scanpackages: info: Wrote 2 entries to output Packages file.
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-LQ0w1G/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-LQ0w1G/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-LQ0w1G/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-LQ0w1G/apt_archive ./ Sources [585 B]
Get:5 copy:/<<BUILDDIR>>/resolver-LQ0w1G/apt_archive ./ Packages [670 B]
Fetched 2588 B in 0s (11.8 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install minimap2 build dependencies (apt-based resolver)
--------------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
libperl5.32 netbase perl-modules-5.32
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
adwaita-icon-theme aglfn autoconf automake autopoint autotools-dev
bsdextrautils cython3 d-shlibs dbus dbus-bin dbus-daemon
dbus-session-bus-common dbus-system-bus-common dbus-user-session
dconf-gsettings-backend dconf-service debhelper dh-autoreconf dh-python
dh-strip-nondeterminism dmsetup dwz file fontconfig fontconfig-config
fonts-dejavu-core fonts-gfs-baskerville fonts-gfs-porson fonts-lmodern
fonts-urw-base35 gettext gettext-base ghostscript gnuplot gnuplot-data
gnuplot-qt groff-base gtk-update-icon-cache hicolor-icon-theme
intltool-debian libapache-pom-java libapparmor1 libarchive-zip-perl
libargon2-1 libatk-bridge2.0-0 libatk1.0-0 libatk1.0-data libatspi2.0-0
libavahi-client3 libavahi-common-data libavahi-common3 libbrotli1 libbsd0
libcairo-gobject2 libcairo2 libcolord2 libcommons-logging-java
libcommons-parent-java libcryptsetup12 libcups2 libdatrie1 libdbus-1-3
libdconf1 libdebhelper-perl libdeflate0 libdevmapper1.02.1
libdouble-conversion3 libdrm-amdgpu1 libdrm-common libdrm-nouveau2
libdrm-radeon1 libdrm2 libedit2 libegl-mesa0 libegl1 libelf1 libepoxy0
libevdev2 libexpat1 libexpat1-dev libfdisk1 libfile-stripnondeterminism-perl
libfontbox-java libfontconfig1 libfreetype6 libfribidi0 libgbm1 libgd3
libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgl1 libgl1-mesa-dri
libglapi-mesa libgles2 libglib2.0-0 libglvnd0 libglx-mesa0 libglx0
libgraphite2-3 libgs9 libgs9-common libgtk-3-0 libgtk-3-common
libgudev-1.0-0 libharfbuzz0b libice6 libicu67 libidn12 libijs-0.35
libinput-bin libinput10 libip4tc2 libjbig0 libjbig2dec0 libjpeg62-turbo
libjs-jquery libjs-sphinxdoc libjs-underscore libjson-c5 libkmod2
libkpathsea6 liblcms2-2 libllvm13 liblua5.4-0 libmagic-mgc libmagic1 libmd0
libmd4c0 libmpdec3 libmtdev1 libnotify4 libopenjp2-7 libpam-systemd
libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils
libpaper1 libpcre2-16-0 libpdfbox-java libpipeline1 libpixman-1-0
libpng16-16 libptexenc1 libpython3-all-dev libpython3-dev libpython3-stdlib
libpython3.10 libpython3.10-dev libpython3.10-minimal libpython3.10-stdlib
libpython3.9 libpython3.9-dev libpython3.9-minimal libpython3.9-stdlib
libqt5core5a libqt5dbus5 libqt5gui5 libqt5network5 libqt5printsupport5
libqt5svg5 libqt5widgets5 libsensors-config libsensors5 libsigsegv2
libsimde-dev libsm6 libsub-override-perl libsynctex2 libteckit0 libtexlua53
libtexluajit2 libthai-data libthai0 libtiff5 libtool libuchardet0 libvulkan1
libwacom-common libwacom9 libwayland-client0 libwayland-cursor0
libwayland-egl1 libwayland-server0 libwebp6 libwxbase3.0-0v5
libwxgtk3.0-gtk3-0v5 libx11-6 libx11-data libx11-xcb1 libxau6 libxaw7
libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-icccm4 libxcb-image0
libxcb-keysyms1 libxcb-present0 libxcb-randr0 libxcb-render-util0
libxcb-render0 libxcb-shape0 libxcb-shm0 libxcb-sync1 libxcb-util1
libxcb-xfixes0 libxcb-xinerama0 libxcb-xinput0 libxcb-xkb1 libxcb1
libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxi6
libxinerama1 libxkbcommon-x11-0 libxkbcommon0 libxml2 libxmu6 libxpm4
libxrandr2 libxrender1 libxshmfence1 libxt6 libxxf86vm1 libz3-4 libzzip-0-13
m4 man-db media-types po-debconf poppler-data preview-latex-style python3
python3-all python3-all-dev python3-dev python3-distutils python3-lib2to3
python3-minimal python3-pkg-resources python3-setuptools python3.10
python3.10-dev python3.10-minimal python3.9 python3.9-dev python3.9-minimal
shared-mime-info systemd systemd-sysv t1utils tex-common texlive-base
texlive-binaries texlive-font-utils texlive-fonts-recommended
texlive-lang-greek texlive-latex-base texlive-latex-extra
texlive-latex-recommended texlive-pictures texlive-science ucf x11-common
xdg-utils xkb-data zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc cython-doc dh-make flit
python3-build python3-tomli python3-installer fonts-freefont-otf
| fonts-freefont-ttf fonts-texgyre gettext-doc libasprintf-dev
libgettextpo-dev ghostscript-x gnuplot-doc groff colord
libavalon-framework-java libcommons-logging-java-doc
libexcalibur-logkit-java liblog4j1.2-java cups-common libgd-tools gvfs
liblcms2-utils qt5-image-formats-plugins qtwayland5 lm-sensors libtool-doc
gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser
libmail-box-perl poppler-utils fonts-japanese-mincho | fonts-ipafont-mincho
fonts-japanese-gothic | fonts-ipafont-gothic fonts-arphic-ukai
fonts-arphic-uming fonts-nanum python3-doc python3-tk python3-venv
python-setuptools-doc python3.10-venv python3.10-doc binfmt-support
python3.9-venv python3.9-doc systemd-container libfido2-1
libtss2-esys-3.0.2-0 libtss2-mu0 libtss2-rc0 policykit-1 perl-tk xpdf
| pdf-viewer xzdec lcdf-typetools psutils texlive-fonts-recommended-doc
texlive-latex-base-doc python3-pygments icc-profiles libfile-which-perl
libspreadsheet-parseexcel-perl texlive-latex-extra-doc
texlive-latex-recommended-doc texlive-luatex texlive-pstricks dot2tex prerex
texlive-pictures-doc vprerex texlive-science-doc
Recommended packages:
librsvg2-common curl | wget | lynx at-spi2-core libarchive-cpio-perl
libgdk-pixbuf2.0-bin libglib2.0-data xdg-user-dirs fonts-droid-fallback
libgtk-3-bin javascript-common notification-daemon ca-certificates
qttranslations5-l10n qt5-gtk-platformtheme libltdl-dev mesa-vulkan-drivers
| vulkan-icd libwacom-bin libmail-sendmail-perl systemd-timesyncd
| time-daemon libnss-systemd lmodern dvisvgm ps2eps tex-gyre tipa
texlive-plain-generic ruby tk libfile-mimeinfo-perl libnet-dbus-perl
libx11-protocol-perl x11-utils x11-xserver-utils
The following NEW packages will be installed:
adwaita-icon-theme aglfn autoconf automake autopoint autotools-dev
bsdextrautils cython3 d-shlibs dbus dbus-bin dbus-daemon
dbus-session-bus-common dbus-system-bus-common dbus-user-session
dconf-gsettings-backend dconf-service debhelper dh-autoreconf dh-python
dh-strip-nondeterminism dmsetup dwz file fontconfig fontconfig-config
fonts-dejavu-core fonts-gfs-baskerville fonts-gfs-porson fonts-lmodern
fonts-urw-base35 gettext gettext-base ghostscript gnuplot gnuplot-data
gnuplot-qt groff-base gtk-update-icon-cache hicolor-icon-theme
intltool-debian libapache-pom-java libapparmor1 libarchive-zip-perl
libargon2-1 libatk-bridge2.0-0 libatk1.0-0 libatk1.0-data libatspi2.0-0
libavahi-client3 libavahi-common-data libavahi-common3 libbrotli1 libbsd0
libcairo-gobject2 libcairo2 libcolord2 libcommons-logging-java
libcommons-parent-java libcryptsetup12 libcups2 libdatrie1 libdbus-1-3
libdconf1 libdebhelper-perl libdeflate0 libdevmapper1.02.1
libdouble-conversion3 libdrm-amdgpu1 libdrm-common libdrm-nouveau2
libdrm-radeon1 libdrm2 libedit2 libegl-mesa0 libegl1 libelf1 libepoxy0
libevdev2 libexpat1 libexpat1-dev libfdisk1 libfile-stripnondeterminism-perl
libfontbox-java libfontconfig1 libfreetype6 libfribidi0 libgbm1 libgd3
libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgl1 libgl1-mesa-dri
libglapi-mesa libgles2 libglib2.0-0 libglvnd0 libglx-mesa0 libglx0
libgraphite2-3 libgs9 libgs9-common libgtk-3-0 libgtk-3-common
libgudev-1.0-0 libharfbuzz0b libice6 libicu67 libidn12 libijs-0.35
libinput-bin libinput10 libip4tc2 libjbig0 libjbig2dec0 libjpeg62-turbo
libjs-jquery libjs-sphinxdoc libjs-underscore libjson-c5 libkmod2
libkpathsea6 liblcms2-2 libllvm13 liblua5.4-0 libmagic-mgc libmagic1 libmd0
libmd4c0 libmpdec3 libmtdev1 libnotify4 libopenjp2-7 libpam-systemd
libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils
libpaper1 libpcre2-16-0 libpdfbox-java libpipeline1 libpixman-1-0
libpng16-16 libptexenc1 libpython3-all-dev libpython3-dev libpython3-stdlib
libpython3.10 libpython3.10-dev libpython3.10-minimal libpython3.10-stdlib
libpython3.9 libpython3.9-dev libpython3.9-minimal libpython3.9-stdlib
libqt5core5a libqt5dbus5 libqt5gui5 libqt5network5 libqt5printsupport5
libqt5svg5 libqt5widgets5 libsensors-config libsensors5 libsigsegv2
libsimde-dev libsm6 libsub-override-perl libsynctex2 libteckit0 libtexlua53
libtexluajit2 libthai-data libthai0 libtiff5 libtool libuchardet0 libvulkan1
libwacom-common libwacom9 libwayland-client0 libwayland-cursor0
libwayland-egl1 libwayland-server0 libwebp6 libwxbase3.0-0v5
libwxgtk3.0-gtk3-0v5 libx11-6 libx11-data libx11-xcb1 libxau6 libxaw7
libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-icccm4 libxcb-image0
libxcb-keysyms1 libxcb-present0 libxcb-randr0 libxcb-render-util0
libxcb-render0 libxcb-shape0 libxcb-shm0 libxcb-sync1 libxcb-util1
libxcb-xfixes0 libxcb-xinerama0 libxcb-xinput0 libxcb-xkb1 libxcb1
libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxi6
libxinerama1 libxkbcommon-x11-0 libxkbcommon0 libxml2 libxmu6 libxpm4
libxrandr2 libxrender1 libxshmfence1 libxt6 libxxf86vm1 libz3-4 libzzip-0-13
m4 man-db media-types po-debconf poppler-data preview-latex-style python3
python3-all python3-all-dev python3-dev python3-distutils python3-lib2to3
python3-minimal python3-pkg-resources python3-setuptools python3.10
python3.10-dev python3.10-minimal python3.9 python3.9-dev python3.9-minimal
sbuild-build-depends-minimap2-dummy shared-mime-info systemd systemd-sysv
t1utils tex-common texlive-base texlive-binaries texlive-font-utils
texlive-fonts-recommended texlive-lang-greek texlive-latex-base
texlive-latex-extra texlive-latex-recommended texlive-pictures
texlive-science ucf x11-common xdg-utils xkb-data zlib1g-dev
0 upgraded, 274 newly installed, 0 to remove and 30 not upgraded.
Need to get 306 MB of archives.
After this operation, 954 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-LQ0w1G/apt_archive ./ sbuild-build-depends-minimap2-dummy 0.invalid.0 [956 B]
Get:2 http://172.17.4.1/private bookworm-staging/main armhf libapparmor1 armhf 3.0.4-2 [99.0 kB]
Get:3 http://172.17.4.1/private bookworm-staging/main armhf libargon2-1 armhf 0~20171227-0.3 [19.6 kB]
Get:4 http://172.17.4.1/private bookworm-staging/main armhf dmsetup armhf 2:1.02.175-2.1 [91.4 kB]
Get:5 http://172.17.4.1/private bookworm-staging/main armhf libdevmapper1.02.1 armhf 2:1.02.175-2.1 [134 kB]
Get:6 http://172.17.4.1/private bookworm-staging/main armhf libjson-c5 armhf 0.15-2 [38.7 kB]
Get:7 http://172.17.4.1/private bookworm-staging/main armhf libcryptsetup12 armhf 2:2.4.3-1 [216 kB]
Get:8 http://172.17.4.1/private bookworm-staging/main armhf libfdisk1 armhf 2.37.3-1 [229 kB]
Get:9 http://172.17.4.1/private bookworm-staging/main armhf libip4tc2 armhf 1.8.7-1 [32.7 kB]
Get:10 http://172.17.4.1/private bookworm-staging/main armhf libkmod2 armhf 29-1 [49.1 kB]
Get:11 http://172.17.4.1/private bookworm-staging/main armhf systemd armhf 250.3-2+rpi1 [4457 kB]
Get:12 http://172.17.4.1/private bookworm-staging/main armhf systemd-sysv armhf 250.3-2+rpi1 [120 kB]
Get:13 http://172.17.4.1/private bookworm-staging/main armhf libdbus-1-3 armhf 1.14.0-1 [210 kB]
Get:14 http://172.17.4.1/private bookworm-staging/main armhf dbus-bin armhf 1.14.0-1 [135 kB]
Get:15 http://172.17.4.1/private bookworm-staging/main armhf dbus-session-bus-common all 1.14.0-1 [110 kB]
Get:16 http://172.17.4.1/private bookworm-staging/main armhf libexpat1 armhf 2.4.4-1 [82.4 kB]
Get:17 http://172.17.4.1/private bookworm-staging/main armhf dbus-daemon armhf 1.14.0-1 [202 kB]
Get:18 http://172.17.4.1/private bookworm-staging/main armhf dbus-system-bus-common all 1.14.0-1 [111 kB]
Get:19 http://172.17.4.1/private bookworm-staging/main armhf dbus armhf 1.14.0-1 [128 kB]
Get:20 http://172.17.4.1/private bookworm-staging/main armhf libglib2.0-0 armhf 2.70.4-1 [1209 kB]
Get:21 http://172.17.4.1/private bookworm-staging/main armhf libicu67 armhf 67.1-7 [8291 kB]
Get:22 http://172.17.4.1/private bookworm-staging/main armhf libxml2 armhf 2.9.13+dfsg-1 [593 kB]
Get:23 http://172.17.4.1/private bookworm-staging/main armhf shared-mime-info armhf 2.1-2 [720 kB]
Get:24 http://172.17.4.1/private bookworm-staging/main armhf libdouble-conversion3 armhf 3.1.7-4 [38.4 kB]
Get:25 http://172.17.4.1/private bookworm-staging/main armhf libpcre2-16-0 armhf 10.39-3 [200 kB]
Get:26 http://172.17.4.1/private bookworm-staging/main armhf libqt5core5a armhf 5.15.2+dfsg-15+rpi1 [1522 kB]
Get:27 http://172.17.4.1/private bookworm-staging/main armhf libbrotli1 armhf 1.0.9-2+b1 [261 kB]
Get:28 http://172.17.4.1/private bookworm-staging/main armhf libpng16-16 armhf 1.6.37-3 [276 kB]
Get:29 http://172.17.4.1/private bookworm-staging/main armhf libfreetype6 armhf 2.11.1+dfsg-1 [334 kB]
Get:30 http://172.17.4.1/private bookworm-staging/main armhf ucf all 3.0043 [74.0 kB]
Get:31 http://172.17.4.1/private bookworm-staging/main armhf fonts-dejavu-core all 2.37-2 [1069 kB]
Get:32 http://172.17.4.1/private bookworm-staging/main armhf fonts-urw-base35 all 20200910-1 [6367 kB]
Get:33 http://172.17.4.1/private bookworm-staging/main armhf fontconfig-config all 2.13.1-4.4 [281 kB]
Get:34 http://172.17.4.1/private bookworm-staging/main armhf libfontconfig1 armhf 2.13.1-4.4 [331 kB]
Get:35 http://172.17.4.1/private bookworm-staging/main armhf fontconfig armhf 2.13.1-4.4 [416 kB]
Get:36 http://172.17.4.1/private bookworm-staging/main armhf libdrm-common all 2.4.110-1+rpi1 [15.5 kB]
Get:37 http://172.17.4.1/private bookworm-staging/main armhf libdrm2 armhf 2.4.110-1+rpi1 [40.7 kB]
Get:38 http://172.17.4.1/private bookworm-staging/main armhf libglvnd0 armhf 1.4.0-1 [55.1 kB]
Get:39 http://172.17.4.1/private bookworm-staging/main armhf libwayland-server0 armhf 1.20.0-1 [28.8 kB]
Get:40 http://172.17.4.1/private bookworm-staging/main armhf libgbm1 armhf 21.3.7-1+rpi1 [74.4 kB]
Get:41 http://172.17.4.1/private bookworm-staging/main armhf libglapi-mesa armhf 21.3.7-1+rpi1 [83.9 kB]
Get:42 http://172.17.4.1/private bookworm-staging/main armhf libwayland-client0 armhf 1.20.0-1 [23.1 kB]
Get:43 http://172.17.4.1/private bookworm-staging/main armhf libxau6 armhf 1:1.0.9-1 [19.1 kB]
Get:44 http://172.17.4.1/private bookworm-staging/main armhf libmd0 armhf 1.0.4-1 [28.9 kB]
Get:45 http://172.17.4.1/private bookworm-staging/main armhf libbsd0 armhf 0.11.5-1 [108 kB]
Get:46 http://172.17.4.1/private bookworm-staging/main armhf libxdmcp6 armhf 1:1.1.2-3 [25.0 kB]
Get:47 http://172.17.4.1/private bookworm-staging/main armhf libxcb1 armhf 1.14-3 [136 kB]
Get:48 http://172.17.4.1/private bookworm-staging/main armhf libx11-data all 2:1.7.2-2 [311 kB]
Get:49 http://172.17.4.1/private bookworm-staging/main armhf libx11-6 armhf 2:1.7.2-2 [704 kB]
Get:50 http://172.17.4.1/private bookworm-staging/main armhf libx11-xcb1 armhf 2:1.7.2-2 [203 kB]
Get:51 http://172.17.4.1/private bookworm-staging/main armhf libxcb-dri2-0 armhf 1.14-3 [103 kB]
Get:52 http://172.17.4.1/private bookworm-staging/main armhf libxcb-dri3-0 armhf 1.14-3 [102 kB]
Get:53 http://172.17.4.1/private bookworm-staging/main armhf libxcb-present0 armhf 1.14-3 [101 kB]
Get:54 http://172.17.4.1/private bookworm-staging/main armhf libxcb-sync1 armhf 1.14-3 [104 kB]
Get:55 http://172.17.4.1/private bookworm-staging/main armhf libxcb-xfixes0 armhf 1.14-3 [105 kB]
Get:56 http://172.17.4.1/private bookworm-staging/main armhf libxshmfence1 armhf 1.3-1 [8636 B]
Get:57 http://172.17.4.1/private bookworm-staging/main armhf libegl-mesa0 armhf 21.3.7-1+rpi1 [126 kB]
Get:58 http://172.17.4.1/private bookworm-staging/main armhf libegl1 armhf 1.4.0-1 [29.8 kB]
Get:59 http://172.17.4.1/private bookworm-staging/main armhf libgles2 armhf 1.4.0-1 [20.3 kB]
Get:60 http://172.17.4.1/private bookworm-staging/main armhf libgraphite2-3 armhf 1.3.14-1 [70.3 kB]
Get:61 http://172.17.4.1/private bookworm-staging/main armhf libharfbuzz0b armhf 2.7.4-1 [1422 kB]
Get:62 http://172.17.4.1/private bookworm-staging/main armhf x11-common all 1:7.7+23 [252 kB]
Get:63 http://172.17.4.1/private bookworm-staging/main armhf libice6 armhf 2:1.0.10-1 [51.7 kB]
Get:64 http://172.17.4.1/private bookworm-staging/main armhf libevdev2 armhf 1.12.0+dfsg-1 [27.8 kB]
Get:65 http://172.17.4.1/private bookworm-staging/main armhf libmtdev1 armhf 1.1.6-1 [22.0 kB]
Get:66 http://172.17.4.1/private bookworm-staging/main armhf libgudev-1.0-0 armhf 237-2 [13.2 kB]
Get:67 http://172.17.4.1/private bookworm-staging/main armhf libwacom-common all 2.1.0-2 [55.0 kB]
Get:68 http://172.17.4.1/private bookworm-staging/main armhf libwacom9 armhf 2.1.0-2 [19.6 kB]
Get:69 http://172.17.4.1/private bookworm-staging/main armhf libinput-bin armhf 1.20.0-1 [24.6 kB]
Get:70 http://172.17.4.1/private bookworm-staging/main armhf libinput10 armhf 1.20.0-1 [108 kB]
Get:71 http://172.17.4.1/private bookworm-staging/main armhf libjpeg62-turbo armhf 1:2.1.2-1 [144 kB]
Get:72 http://172.17.4.1/private bookworm-staging/main armhf libmd4c0 armhf 0.4.8-1 [39.4 kB]
Get:73 http://172.17.4.1/private bookworm-staging/main armhf libqt5dbus5 armhf 5.15.2+dfsg-15+rpi1 [213 kB]
Get:74 http://172.17.4.1/private bookworm-staging/main armhf libqt5network5 armhf 5.15.2+dfsg-15+rpi1 [598 kB]
Get:75 http://172.17.4.1/private bookworm-staging/main armhf libsm6 armhf 2:1.2.3-1 [32.9 kB]
Get:76 http://172.17.4.1/private bookworm-staging/main armhf libxcb-icccm4 armhf 0.4.1-1.1 [26.3 kB]
Get:77 http://172.17.4.1/private bookworm-staging/main armhf libxcb-shm0 armhf 1.14-3 [101 kB]
Get:78 http://172.17.4.1/private bookworm-staging/main armhf libxcb-util1 armhf 0.4.0-1 [22.1 kB]
Get:79 http://172.17.4.1/private bookworm-staging/main armhf libxcb-image0 armhf 0.4.0-2 [21.9 kB]
Get:80 http://172.17.4.1/private bookworm-staging/main armhf libxcb-keysyms1 armhf 0.4.0-1+b2 [15.9 kB]
Get:81 http://172.17.4.1/private bookworm-staging/main armhf libxcb-randr0 armhf 1.14-3 [112 kB]
Get:82 http://172.17.4.1/private bookworm-staging/main armhf libxcb-render0 armhf 1.14-3 [110 kB]
Get:83 http://172.17.4.1/private bookworm-staging/main armhf libxcb-render-util0 armhf 0.3.9-1+b1 [17.3 kB]
Get:84 http://172.17.4.1/private bookworm-staging/main armhf libxcb-shape0 armhf 1.14-3 [102 kB]
Get:85 http://172.17.4.1/private bookworm-staging/main armhf libxcb-xinerama0 armhf 1.14-3 [101 kB]
Get:86 http://172.17.4.1/private bookworm-staging/main armhf libxcb-xinput0 armhf 1.14-3 [123 kB]
Get:87 http://172.17.4.1/private bookworm-staging/main armhf libxcb-xkb1 armhf 1.14-3 [122 kB]
Get:88 http://172.17.4.1/private bookworm-staging/main armhf xkb-data all 2.33-1 [748 kB]
Get:89 http://172.17.4.1/private bookworm-staging/main armhf libxkbcommon0 armhf 1.4.0-1 [95.6 kB]
Get:90 http://172.17.4.1/private bookworm-staging/main armhf libxkbcommon-x11-0 armhf 1.4.0-1 [15.8 kB]
Get:91 http://172.17.4.1/private bookworm-staging/main armhf libxrender1 armhf 1:0.9.10-1 [29.9 kB]
Get:92 http://172.17.4.1/private bookworm-staging/main armhf libqt5gui5 armhf 5.15.2+dfsg-15+rpi1 [2557 kB]
Get:93 http://172.17.4.1/private bookworm-staging/main armhf libqt5widgets5 armhf 5.15.2+dfsg-15+rpi1 [2061 kB]
Get:94 http://172.17.4.1/private bookworm-staging/main armhf libqt5svg5 armhf 5.15.2-4 [116 kB]
Get:95 http://172.17.4.1/private bookworm-staging/main armhf poppler-data all 0.4.11-1 [1608 kB]
Get:96 http://172.17.4.1/private bookworm-staging/main armhf libpython3.9-minimal armhf 3.9.10-2+rpi1 [793 kB]
Get:97 http://172.17.4.1/private bookworm-staging/main armhf python3.9-minimal armhf 3.9.10-2+rpi1 [1595 kB]
Get:98 http://172.17.4.1/private bookworm-staging/main armhf python3-minimal armhf 3.9.8-1 [38.5 kB]
Get:99 http://172.17.4.1/private bookworm-staging/main armhf media-types all 6.0.0 [32.8 kB]
Get:100 http://172.17.4.1/private bookworm-staging/main armhf libmpdec3 armhf 2.5.1-2+rpi1 [73.5 kB]
Get:101 http://172.17.4.1/private bookworm-staging/main armhf libpython3.9-stdlib armhf 3.9.10-2+rpi1 [1610 kB]
Get:102 http://172.17.4.1/private bookworm-staging/main armhf python3.9 armhf 3.9.10-2+rpi1 [488 kB]
Get:103 http://172.17.4.1/private bookworm-staging/main armhf libpython3-stdlib armhf 3.9.8-1 [21.6 kB]
Get:104 http://172.17.4.1/private bookworm-staging/main armhf python3 armhf 3.9.8-1 [38.1 kB]
Get:105 http://172.17.4.1/private bookworm-staging/main armhf libpython3.10-minimal armhf 3.10.2-1 [808 kB]
Get:106 http://172.17.4.1/private bookworm-staging/main armhf python3.10-minimal armhf 3.10.2-1 [1633 kB]
Get:107 http://172.17.4.1/private bookworm-staging/main armhf tex-common all 6.17 [53.6 kB]
Get:108 http://172.17.4.1/private bookworm-staging/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB]
Get:109 http://172.17.4.1/private bookworm-staging/main armhf groff-base armhf 1.22.4-8 [793 kB]
Get:110 http://172.17.4.1/private bookworm-staging/main armhf bsdextrautils armhf 2.37.3-1 [136 kB]
Get:111 http://172.17.4.1/private bookworm-staging/main armhf libpipeline1 armhf 1.5.5-1 [32.9 kB]
Get:112 http://172.17.4.1/private bookworm-staging/main armhf man-db armhf 2.10.1-1 [1358 kB]
Get:113 http://172.17.4.1/private bookworm-staging/main armhf libmagic-mgc armhf 1:5.41-2 [295 kB]
Get:114 http://172.17.4.1/private bookworm-staging/main armhf libmagic1 armhf 1:5.41-2 [119 kB]
Get:115 http://172.17.4.1/private bookworm-staging/main armhf file armhf 1:5.41-2 [65.8 kB]
Get:116 http://172.17.4.1/private bookworm-staging/main armhf gettext-base armhf 0.21-4 [171 kB]
Get:117 http://172.17.4.1/private bookworm-staging/main armhf libpam-systemd armhf 250.3-2+rpi1 [276 kB]
Get:118 http://172.17.4.1/private bookworm-staging/main armhf hicolor-icon-theme all 0.17-2 [11.4 kB]
Get:119 http://172.17.4.1/private bookworm-staging/main armhf libgdk-pixbuf2.0-common all 2.42.6+dfsg-2 [327 kB]
Get:120 http://172.17.4.1/private bookworm-staging/main armhf libdeflate0 armhf 1.10-2 [55.4 kB]
Get:121 http://172.17.4.1/private bookworm-staging/main armhf libjbig0 armhf 2.1-3.1+b2 [27.6 kB]
Get:122 http://172.17.4.1/private bookworm-staging/main armhf libwebp6 armhf 0.6.1-2.1 [225 kB]
Get:123 http://172.17.4.1/private bookworm-staging/main armhf libtiff5 armhf 4.3.0-4 [272 kB]
Get:124 http://172.17.4.1/private bookworm-staging/main armhf libgdk-pixbuf-2.0-0 armhf 2.42.6+dfsg-2 [139 kB]
Get:125 http://172.17.4.1/private bookworm-staging/main armhf gtk-update-icon-cache armhf 3.24.33-1 [89.3 kB]
Get:126 http://172.17.4.1/private bookworm-staging/main armhf adwaita-icon-theme all 42~really41.0-1 [10.8 MB]
Get:127 http://172.17.4.1/private bookworm-staging/main armhf aglfn all 1.7+git20191031.4036a9c-2 [30.5 kB]
Get:128 http://172.17.4.1/private bookworm-staging/main armhf libsigsegv2 armhf 2.14-1 [36.6 kB]
Get:129 http://172.17.4.1/private bookworm-staging/main armhf m4 armhf 1.4.18-5 [186 kB]
Get:130 http://172.17.4.1/private bookworm-staging/main armhf autoconf all 2.71-2 [343 kB]
Get:131 http://172.17.4.1/private bookworm-staging/main armhf autotools-dev all 20220109.1 [51.6 kB]
Get:132 http://172.17.4.1/private bookworm-staging/main armhf automake all 1:1.16.5-1.1 [823 kB]
Get:133 http://172.17.4.1/private bookworm-staging/main armhf autopoint all 0.21-4 [510 kB]
Get:134 http://172.17.4.1/private bookworm-staging/main armhf cython3 armhf 0.29.28-1 [2042 kB]
Get:135 http://172.17.4.1/private bookworm-staging/main armhf d-shlibs all 0.104 [18.6 kB]
Get:136 http://172.17.4.1/private bookworm-staging/main armhf dbus-user-session armhf 1.14.0-1 [110 kB]
Get:137 http://172.17.4.1/private bookworm-staging/main armhf libdconf1 armhf 0.40.0-3 [42.5 kB]
Get:138 http://172.17.4.1/private bookworm-staging/main armhf dconf-service armhf 0.40.0-3 [35.4 kB]
Get:139 http://172.17.4.1/private bookworm-staging/main armhf dconf-gsettings-backend armhf 0.40.0-3 [29.4 kB]
Get:140 http://172.17.4.1/private bookworm-staging/main armhf libdebhelper-perl all 13.6 [193 kB]
Get:141 http://172.17.4.1/private bookworm-staging/main armhf libtool all 2.4.6-15 [513 kB]
Get:142 http://172.17.4.1/private bookworm-staging/main armhf dh-autoreconf all 20 [17.1 kB]
Get:143 http://172.17.4.1/private bookworm-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:144 http://172.17.4.1/private bookworm-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:145 http://172.17.4.1/private bookworm-staging/main armhf libfile-stripnondeterminism-perl all 1.13.0-1 [26.6 kB]
Get:146 http://172.17.4.1/private bookworm-staging/main armhf dh-strip-nondeterminism all 1.13.0-1 [15.8 kB]
Get:147 http://172.17.4.1/private bookworm-staging/main armhf libelf1 armhf 0.186-1 [174 kB]
Get:148 http://172.17.4.1/private bookworm-staging/main armhf dwz armhf 0.14-1 [83.0 kB]
Get:149 http://172.17.4.1/private bookworm-staging/main armhf gettext armhf 0.21-4 [1215 kB]
Get:150 http://172.17.4.1/private bookworm-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:151 http://172.17.4.1/private bookworm-staging/main armhf po-debconf all 1.0.21+nmu1 [248 kB]
Get:152 http://172.17.4.1/private bookworm-staging/main armhf debhelper all 13.6 [1054 kB]
Get:153 http://172.17.4.1/private bookworm-staging/main armhf python3-lib2to3 all 3.9.10-1 [79.4 kB]
Get:154 http://172.17.4.1/private bookworm-staging/main armhf python3-distutils all 3.9.10-1 [146 kB]
Get:155 http://172.17.4.1/private bookworm-staging/main armhf dh-python all 5.20220215 [112 kB]
Get:156 http://172.17.4.1/private bookworm-staging/main armhf fonts-gfs-baskerville all 1.1-6 [43.7 kB]
Get:157 http://172.17.4.1/private bookworm-staging/main armhf fonts-gfs-porson all 1.1-7 [33.8 kB]
Get:158 http://172.17.4.1/private bookworm-staging/main armhf fonts-lmodern all 2.004.5-6.1 [4540 kB]
Get:159 http://172.17.4.1/private bookworm-staging/main armhf libgs9-common all 9.55.0~dfsg-3 [745 kB]
Get:160 http://172.17.4.1/private bookworm-staging/main armhf libavahi-common-data armhf 0.8-5 [123 kB]
Get:161 http://172.17.4.1/private bookworm-staging/main armhf libavahi-common3 armhf 0.8-5 [55.3 kB]
Get:162 http://172.17.4.1/private bookworm-staging/main armhf libavahi-client3 armhf 0.8-5 [57.9 kB]
Get:163 http://172.17.4.1/private bookworm-staging/main armhf libcups2 armhf 2.4.1op1-2 [310 kB]
Get:164 http://172.17.4.1/private bookworm-staging/main armhf libidn12 armhf 1.38-4 [80.7 kB]
Get:165 http://172.17.4.1/private bookworm-staging/main armhf libijs-0.35 armhf 0.35-15 [14.7 kB]
Get:166 http://172.17.4.1/private bookworm-staging/main armhf libjbig2dec0 armhf 0.19-3+b2 [58.6 kB]
Get:167 http://172.17.4.1/private bookworm-staging/main armhf liblcms2-2 armhf 2.12~rc1-2 [121 kB]
Get:168 http://172.17.4.1/private bookworm-staging/main armhf libopenjp2-7 armhf 2.4.0-6 [150 kB]
Get:169 http://172.17.4.1/private bookworm-staging/main armhf libpaper1 armhf 1.1.28 [20.5 kB]
Get:170 http://172.17.4.1/private bookworm-staging/main armhf libgs9 armhf 9.55.0~dfsg-3 [2150 kB]
Get:171 http://172.17.4.1/private bookworm-staging/main armhf ghostscript armhf 9.55.0~dfsg-3 [98.5 kB]
Get:172 http://172.17.4.1/private bookworm-staging/main armhf gnuplot-data all 5.4.2+dfsg2-2 [87.6 kB]
Get:173 http://172.17.4.1/private bookworm-staging/main armhf libpixman-1-0 armhf 0.40.0-1 [463 kB]
Get:174 http://172.17.4.1/private bookworm-staging/main armhf libxext6 armhf 2:1.3.4-1 [48.0 kB]
Get:175 http://172.17.4.1/private bookworm-staging/main armhf libcairo2 armhf 1.16.0-5 [602 kB]
Get:176 http://172.17.4.1/private bookworm-staging/main armhf libedit2 armhf 3.1-20210910-1 [81.2 kB]
Get:177 http://172.17.4.1/private bookworm-staging/main armhf libxpm4 armhf 1:3.5.12-1 [43.6 kB]
Get:178 http://172.17.4.1/private bookworm-staging/main armhf libgd3 armhf 2.3.0-2 [116 kB]
Get:179 http://172.17.4.1/private bookworm-staging/main armhf liblua5.4-0 armhf 5.4.4-1 [110 kB]
Get:180 http://172.17.4.1/private bookworm-staging/main armhf libfribidi0 armhf 1.0.8-2 [63.5 kB]
Get:181 http://172.17.4.1/private bookworm-staging/main armhf libthai-data all 0.1.29-1 [176 kB]
Get:182 http://172.17.4.1/private bookworm-staging/main armhf libdatrie1 armhf 0.2.13-2+b2 [39.9 kB]
Get:183 http://172.17.4.1/private bookworm-staging/main armhf libthai0 armhf 0.1.29-1 [54.5 kB]
Get:184 http://172.17.4.1/private bookworm-staging/main armhf libpango-1.0-0 armhf 1.50.4+ds-1 [213 kB]
Get:185 http://172.17.4.1/private bookworm-staging/main armhf libpangoft2-1.0-0 armhf 1.50.4+ds-1 [69.8 kB]
Get:186 http://172.17.4.1/private bookworm-staging/main armhf libpangocairo-1.0-0 armhf 1.50.4+ds-1 [59.9 kB]
Get:187 http://172.17.4.1/private bookworm-staging/main armhf libqt5printsupport5 armhf 5.15.2+dfsg-15+rpi1 [211 kB]
Get:188 http://172.17.4.1/private bookworm-staging/main armhf libwxbase3.0-0v5 armhf 3.0.5.1+dfsg-3 [880 kB]
Get:189 http://172.17.4.1/private bookworm-staging/main armhf libxcb-glx0 armhf 1.14-3 [117 kB]
Get:190 http://172.17.4.1/private bookworm-staging/main armhf libxfixes3 armhf 1:6.0.0-1 [21.0 kB]
Get:191 http://172.17.4.1/private bookworm-staging/main armhf libxxf86vm1 armhf 1:1.1.4-1+b2 [20.1 kB]
Get:192 http://172.17.4.1/private bookworm-staging/main armhf libdrm-amdgpu1 armhf 2.4.110-1+rpi1 [28.1 kB]
Get:193 http://172.17.4.1/private bookworm-staging/main armhf libdrm-nouveau2 armhf 2.4.110-1+rpi1 [25.6 kB]
Get:194 http://172.17.4.1/private bookworm-staging/main armhf libdrm-radeon1 armhf 2.4.110-1+rpi1 [29.7 kB]
Get:195 http://172.17.4.1/private bookworm-staging/main armhf libz3-4 armhf 4.8.12-1 [5758 kB]
Get:196 http://172.17.4.1/private bookworm-staging/main armhf libllvm13 armhf 1:13.0.1-3+rpi1 [17.9 MB]
Get:197 http://172.17.4.1/private bookworm-staging/main armhf libsensors-config all 1:3.6.0-7 [32.3 kB]
Get:198 http://172.17.4.1/private bookworm-staging/main armhf libsensors5 armhf 1:3.6.0-7 [49.6 kB]
Get:199 http://172.17.4.1/private bookworm-staging/main armhf libvulkan1 armhf 1.3.204.0-1 [92.3 kB]
Get:200 http://172.17.4.1/private bookworm-staging/main armhf libgl1-mesa-dri armhf 21.3.7-1+rpi1 [6681 kB]
Get:201 http://172.17.4.1/private bookworm-staging/main armhf libglx-mesa0 armhf 21.3.7-1+rpi1 [169 kB]
Get:202 http://172.17.4.1/private bookworm-staging/main armhf libglx0 armhf 1.4.0-1 [26.3 kB]
Get:203 http://172.17.4.1/private bookworm-staging/main armhf libgl1 armhf 1.4.0-1 [105 kB]
Get:204 http://172.17.4.1/private bookworm-staging/main armhf libatk1.0-data all 2.36.0-3 [149 kB]
Get:205 http://172.17.4.1/private bookworm-staging/main armhf libatk1.0-0 armhf 2.36.0-3 [44.2 kB]
Get:206 http://172.17.4.1/private bookworm-staging/main armhf libxi6 armhf 2:1.8-1 [78.1 kB]
Get:207 http://172.17.4.1/private bookworm-staging/main armhf libatspi2.0-0 armhf 2.42.0-2 [67.4 kB]
Get:208 http://172.17.4.1/private bookworm-staging/main armhf libatk-bridge2.0-0 armhf 2.38.0-3 [55.8 kB]
Get:209 http://172.17.4.1/private bookworm-staging/main armhf libcairo-gobject2 armhf 1.16.0-5 [124 kB]
Get:210 http://172.17.4.1/private bookworm-staging/main armhf libcolord2 armhf 1.4.6-1 [122 kB]
Get:211 http://172.17.4.1/private bookworm-staging/main armhf libepoxy0 armhf 1.5.9-2 [174 kB]
Get:212 http://172.17.4.1/private bookworm-staging/main armhf libwayland-cursor0 armhf 1.20.0-1 [13.7 kB]
Get:213 http://172.17.4.1/private bookworm-staging/main armhf libwayland-egl1 armhf 1.20.0-1 [8404 B]
Get:214 http://172.17.4.1/private bookworm-staging/main armhf libxcomposite1 armhf 1:0.4.5-1 [16.2 kB]
Get:215 http://172.17.4.1/private bookworm-staging/main armhf libxcursor1 armhf 1:1.2.0-2 [34.2 kB]
Get:216 http://172.17.4.1/private bookworm-staging/main armhf libxdamage1 armhf 1:1.1.5-2 [15.2 kB]
Get:217 http://172.17.4.1/private bookworm-staging/main armhf libxinerama1 armhf 2:1.1.4-3 [17.4 kB]
Get:218 http://172.17.4.1/private bookworm-staging/main armhf libxrandr2 armhf 2:1.5.2-1 [34.9 kB]
Get:219 http://172.17.4.1/private bookworm-staging/main armhf libgtk-3-common all 3.24.33-1 [3795 kB]
Get:220 http://172.17.4.1/private bookworm-staging/main armhf libgtk-3-0 armhf 3.24.33-1 [2420 kB]
Get:221 http://172.17.4.1/private bookworm-staging/main armhf libnotify4 armhf 0.7.9-3 [21.9 kB]
Get:222 http://172.17.4.1/private bookworm-staging/main armhf libwxgtk3.0-gtk3-0v5 armhf 3.0.5.1+dfsg-3 [3563 kB]
Get:223 http://172.17.4.1/private bookworm-staging/main armhf gnuplot-qt armhf 5.4.2+dfsg2-2 [905 kB]
Get:224 http://172.17.4.1/private bookworm-staging/main armhf gnuplot all 5.4.2+dfsg2-2 [21.4 kB]
Get:225 http://172.17.4.1/private bookworm-staging/main armhf libapache-pom-java all 18-1 [4676 B]
Get:226 http://172.17.4.1/private bookworm-staging/main armhf libcommons-parent-java all 43-1 [10.8 kB]
Get:227 http://172.17.4.1/private bookworm-staging/main armhf libcommons-logging-java all 1.2-2 [62.2 kB]
Get:228 http://172.17.4.1/private bookworm-staging/main armhf libexpat1-dev armhf 2.4.4-1 [135 kB]
Get:229 http://172.17.4.1/private bookworm-staging/main armhf libfontbox-java all 1:1.8.16-2 [211 kB]
Get:230 http://172.17.4.1/private bookworm-staging/main armhf libjs-jquery all 3.6.0+dfsg+~3.5.13-1 [316 kB]
Get:231 http://172.17.4.1/private bookworm-staging/main armhf libjs-underscore all 1.13.2~dfsg-2 [116 kB]
Get:232 http://172.17.4.1/private bookworm-staging/main armhf libjs-sphinxdoc all 4.3.2-1 [139 kB]
Get:233 http://172.17.4.1/private bookworm-staging/main armhf libkpathsea6 armhf 2021.20210626.59705-1 [164 kB]
Get:234 http://172.17.4.1/private bookworm-staging/main armhf libpaper-utils armhf 1.1.28 [17.7 kB]
Get:235 http://172.17.4.1/private bookworm-staging/main armhf libpdfbox-java all 1:1.8.16-2 [5205 kB]
Get:236 http://172.17.4.1/private bookworm-staging/main armhf libptexenc1 armhf 2021.20210626.59705-1 [61.5 kB]
Get:237 http://172.17.4.1/private bookworm-staging/main armhf libpython3.9 armhf 3.9.10-2+rpi1 [1419 kB]
Get:238 http://172.17.4.1/private bookworm-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [184 kB]
Get:239 http://172.17.4.1/private bookworm-staging/main armhf libpython3.9-dev armhf 3.9.10-2+rpi1 [3018 kB]
Get:240 http://172.17.4.1/private bookworm-staging/main armhf libpython3-dev armhf 3.9.8-1 [21.9 kB]
Get:241 http://172.17.4.1/private bookworm-staging/main armhf libpython3.10-stdlib armhf 3.10.2-1 [1622 kB]
Get:242 http://172.17.4.1/private bookworm-staging/main armhf libpython3.10 armhf 3.10.2-1 [1453 kB]
Get:243 http://172.17.4.1/private bookworm-staging/main armhf libpython3.10-dev armhf 3.10.2-1 [3100 kB]
Get:244 http://172.17.4.1/private bookworm-staging/main armhf libpython3-all-dev armhf 3.9.8-1 [1072 B]
Get:245 http://172.17.4.1/private bookworm-staging/main armhf libsimde-dev all 0.7.2-6 [259 kB]
Get:246 http://172.17.4.1/private bookworm-staging/main armhf libsynctex2 armhf 2021.20210626.59705-1 [67.4 kB]
Get:247 http://172.17.4.1/private bookworm-staging/main armhf libteckit0 armhf 2.5.11+ds1-1 [256 kB]
Get:248 http://172.17.4.1/private bookworm-staging/main armhf libtexlua53 armhf 2021.20210626.59705-1 [102 kB]
Get:249 http://172.17.4.1/private bookworm-staging/main armhf libtexluajit2 armhf 2021.20210626.59705-1 [208 kB]
Get:250 http://172.17.4.1/private bookworm-staging/main armhf libxt6 armhf 1:1.2.1-1 [159 kB]
Get:251 http://172.17.4.1/private bookworm-staging/main armhf libxmu6 armhf 2:1.1.3-3 [52.0 kB]
Get:252 http://172.17.4.1/private bookworm-staging/main armhf libxaw7 armhf 2:1.0.14-1 [165 kB]
Get:253 http://172.17.4.1/private bookworm-staging/main armhf libzzip-0-13 armhf 0.13.72+dfsg.1-1.1 [54.3 kB]
Get:254 http://172.17.4.1/private bookworm-staging/main armhf preview-latex-style all 12.2-1 [201 kB]
Get:255 http://172.17.4.1/private bookworm-staging/main armhf python3.10 armhf 3.10.2-1 [529 kB]
Get:256 http://172.17.4.1/private bookworm-staging/main armhf python3-all armhf 3.9.8-1 [1060 B]
Get:257 http://172.17.4.1/private bookworm-staging/main armhf python3.9-dev armhf 3.9.10-2+rpi1 [501 kB]
Get:258 http://172.17.4.1/private bookworm-staging/main armhf python3-dev armhf 3.9.8-1 [25.3 kB]
Get:259 http://172.17.4.1/private bookworm-staging/main armhf python3.10-dev armhf 3.10.2-1 [508 kB]
Get:260 http://172.17.4.1/private bookworm-staging/main armhf python3-all-dev armhf 3.9.8-1 [1076 B]
Get:261 http://172.17.4.1/private bookworm-staging/main armhf python3-pkg-resources all 59.6.0-1.2 [196 kB]
Get:262 http://172.17.4.1/private bookworm-staging/main armhf python3-setuptools all 59.6.0-1.2 [401 kB]
Get:263 http://172.17.4.1/private bookworm-staging/main armhf t1utils armhf 1.41-4 [52.3 kB]
Get:264 http://172.17.4.1/private bookworm-staging/main armhf texlive-binaries armhf 2021.20210626.59705-1 [6847 kB]
Get:265 http://172.17.4.1/private bookworm-staging/main armhf xdg-utils all 1.1.3-4.1 [75.5 kB]
Get:266 http://172.17.4.1/private bookworm-staging/main armhf texlive-base all 2021.20220204-1 [21.2 MB]
Get:267 http://172.17.4.1/private bookworm-staging/main armhf texlive-font-utils all 2021.20220204-1 [4120 kB]
Get:268 http://172.17.4.1/private bookworm-staging/main armhf texlive-fonts-recommended all 2021.20220204-1 [5003 kB]
Get:269 http://172.17.4.1/private bookworm-staging/main armhf texlive-lang-greek all 2021.20220204-1 [77.8 MB]
Get:270 http://172.17.4.1/private bookworm-staging/main armhf texlive-latex-base all 2021.20220204-1 [1160 kB]
Get:271 http://172.17.4.1/private bookworm-staging/main armhf texlive-latex-recommended all 2021.20220204-1 [14.4 MB]
Get:272 http://172.17.4.1/private bookworm-staging/main armhf texlive-pictures all 2021.20220204-1 [8734 kB]
Get:273 http://172.17.4.1/private bookworm-staging/main armhf texlive-latex-extra all 2021.20220204-1 [14.3 MB]
Get:274 http://172.17.4.1/private bookworm-staging/main armhf texlive-science all 2021.20220204-1 [3659 kB]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 306 MB in 30s (10.3 MB/s)
Selecting previously unselected package libapparmor1:armhf.
(Reading database ... 14451 files and directories currently installed.)
Preparing to unpack .../0-libapparmor1_3.0.4-2_armhf.deb ...
Unpacking libapparmor1:armhf (3.0.4-2) ...
Selecting previously unselected package libargon2-1:armhf.
Preparing to unpack .../1-libargon2-1_0~20171227-0.3_armhf.deb ...
Unpacking libargon2-1:armhf (0~20171227-0.3) ...
Selecting previously unselected package dmsetup.
Preparing to unpack .../2-dmsetup_2%3a1.02.175-2.1_armhf.deb ...
Unpacking dmsetup (2:1.02.175-2.1) ...
Selecting previously unselected package libdevmapper1.02.1:armhf.
Preparing to unpack .../3-libdevmapper1.02.1_2%3a1.02.175-2.1_armhf.deb ...
Unpacking libdevmapper1.02.1:armhf (2:1.02.175-2.1) ...
Selecting previously unselected package libjson-c5:armhf.
Preparing to unpack .../4-libjson-c5_0.15-2_armhf.deb ...
Unpacking libjson-c5:armhf (0.15-2) ...
Selecting previously unselected package libcryptsetup12:armhf.
Preparing to unpack .../5-libcryptsetup12_2%3a2.4.3-1_armhf.deb ...
Unpacking libcryptsetup12:armhf (2:2.4.3-1) ...
Selecting previously unselected package libfdisk1:armhf.
Preparing to unpack .../6-libfdisk1_2.37.3-1_armhf.deb ...
Unpacking libfdisk1:armhf (2.37.3-1) ...
Selecting previously unselected package libip4tc2:armhf.
Preparing to unpack .../7-libip4tc2_1.8.7-1_armhf.deb ...
Unpacking libip4tc2:armhf (1.8.7-1) ...
Selecting previously unselected package libkmod2:armhf.
Preparing to unpack .../8-libkmod2_29-1_armhf.deb ...
Unpacking libkmod2:armhf (29-1) ...
Selecting previously unselected package systemd.
Preparing to unpack .../9-systemd_250.3-2+rpi1_armhf.deb ...
Unpacking systemd (250.3-2+rpi1) ...
Setting up libapparmor1:armhf (3.0.4-2) ...
Setting up libargon2-1:armhf (0~20171227-0.3) ...
Setting up libjson-c5:armhf (0.15-2) ...
Setting up libfdisk1:armhf (2.37.3-1) ...
Setting up libip4tc2:armhf (1.8.7-1) ...
Setting up libkmod2:armhf (29-1) ...
Setting up libdevmapper1.02.1:armhf (2:1.02.175-2.1) ...
Setting up libcryptsetup12:armhf (2:2.4.3-1) ...
Setting up systemd (250.3-2+rpi1) ...
Created symlink /etc/systemd/system/getty.target.wants/getty@tty1.service -> /lib/systemd/system/getty@.service.
Created symlink /etc/systemd/system/multi-user.target.wants/remote-fs.target -> /lib/systemd/system/remote-fs.target.
Created symlink /etc/systemd/system/sysinit.target.wants/systemd-pstore.service -> /lib/systemd/system/systemd-pstore.service.
Initializing machine ID from random generator.
Setting up dmsetup (2:1.02.175-2.1) ...
Selecting previously unselected package systemd-sysv.
(Reading database ... 15358 files and directories currently installed.)
Preparing to unpack .../00-systemd-sysv_250.3-2+rpi1_armhf.deb ...
Unpacking systemd-sysv (250.3-2+rpi1) ...
Selecting previously unselected package libdbus-1-3:armhf.
Preparing to unpack .../01-libdbus-1-3_1.14.0-1_armhf.deb ...
Unpacking libdbus-1-3:armhf (1.14.0-1) ...
Selecting previously unselected package dbus-bin.
Preparing to unpack .../02-dbus-bin_1.14.0-1_armhf.deb ...
Unpacking dbus-bin (1.14.0-1) ...
Selecting previously unselected package dbus-session-bus-common.
Preparing to unpack .../03-dbus-session-bus-common_1.14.0-1_all.deb ...
Unpacking dbus-session-bus-common (1.14.0-1) ...
Selecting previously unselected package libexpat1:armhf.
Preparing to unpack .../04-libexpat1_2.4.4-1_armhf.deb ...
Unpacking libexpat1:armhf (2.4.4-1) ...
Selecting previously unselected package dbus-daemon.
Preparing to unpack .../05-dbus-daemon_1.14.0-1_armhf.deb ...
Unpacking dbus-daemon (1.14.0-1) ...
Selecting previously unselected package dbus-system-bus-common.
Preparing to unpack .../06-dbus-system-bus-common_1.14.0-1_all.deb ...
Unpacking dbus-system-bus-common (1.14.0-1) ...
Selecting previously unselected package dbus.
Preparing to unpack .../07-dbus_1.14.0-1_armhf.deb ...
Unpacking dbus (1.14.0-1) ...
Selecting previously unselected package libglib2.0-0:armhf.
Preparing to unpack .../08-libglib2.0-0_2.70.4-1_armhf.deb ...
Unpacking libglib2.0-0:armhf (2.70.4-1) ...
Selecting previously unselected package libicu67:armhf.
Preparing to unpack .../09-libicu67_67.1-7_armhf.deb ...
Unpacking libicu67:armhf (67.1-7) ...
Selecting previously unselected package libxml2:armhf.
Preparing to unpack .../10-libxml2_2.9.13+dfsg-1_armhf.deb ...
Unpacking libxml2:armhf (2.9.13+dfsg-1) ...
Selecting previously unselected package shared-mime-info.
Preparing to unpack .../11-shared-mime-info_2.1-2_armhf.deb ...
Unpacking shared-mime-info (2.1-2) ...
Selecting previously unselected package libdouble-conversion3:armhf.
Preparing to unpack .../12-libdouble-conversion3_3.1.7-4_armhf.deb ...
Unpacking libdouble-conversion3:armhf (3.1.7-4) ...
Selecting previously unselected package libpcre2-16-0:armhf.
Preparing to unpack .../13-libpcre2-16-0_10.39-3_armhf.deb ...
Unpacking libpcre2-16-0:armhf (10.39-3) ...
Selecting previously unselected package libqt5core5a:armhf.
Preparing to unpack .../14-libqt5core5a_5.15.2+dfsg-15+rpi1_armhf.deb ...
Unpacking libqt5core5a:armhf (5.15.2+dfsg-15+rpi1) ...
Selecting previously unselected package libbrotli1:armhf.
Preparing to unpack .../15-libbrotli1_1.0.9-2+b1_armhf.deb ...
Unpacking libbrotli1:armhf (1.0.9-2+b1) ...
Selecting previously unselected package libpng16-16:armhf.
Preparing to unpack .../16-libpng16-16_1.6.37-3_armhf.deb ...
Unpacking libpng16-16:armhf (1.6.37-3) ...
Selecting previously unselected package libfreetype6:armhf.
Preparing to unpack .../17-libfreetype6_2.11.1+dfsg-1_armhf.deb ...
Unpacking libfreetype6:armhf (2.11.1+dfsg-1) ...
Selecting previously unselected package ucf.
Preparing to unpack .../18-ucf_3.0043_all.deb ...
Moving old data out of the way
Unpacking ucf (3.0043) ...
Selecting previously unselected package fonts-dejavu-core.
Preparing to unpack .../19-fonts-dejavu-core_2.37-2_all.deb ...
Unpacking fonts-dejavu-core (2.37-2) ...
Selecting previously unselected package fonts-urw-base35.
Preparing to unpack .../20-fonts-urw-base35_20200910-1_all.deb ...
Unpacking fonts-urw-base35 (20200910-1) ...
Selecting previously unselected package fontconfig-config.
Preparing to unpack .../21-fontconfig-config_2.13.1-4.4_all.deb ...
Unpacking fontconfig-config (2.13.1-4.4) ...
Selecting previously unselected package libfontconfig1:armhf.
Preparing to unpack .../22-libfontconfig1_2.13.1-4.4_armhf.deb ...
Unpacking libfontconfig1:armhf (2.13.1-4.4) ...
Selecting previously unselected package fontconfig.
Preparing to unpack .../23-fontconfig_2.13.1-4.4_armhf.deb ...
Unpacking fontconfig (2.13.1-4.4) ...
Selecting previously unselected package libdrm-common.
Preparing to unpack .../24-libdrm-common_2.4.110-1+rpi1_all.deb ...
Unpacking libdrm-common (2.4.110-1+rpi1) ...
Selecting previously unselected package libdrm2:armhf.
Preparing to unpack .../25-libdrm2_2.4.110-1+rpi1_armhf.deb ...
Unpacking libdrm2:armhf (2.4.110-1+rpi1) ...
Selecting previously unselected package libglvnd0:armhf.
Preparing to unpack .../26-libglvnd0_1.4.0-1_armhf.deb ...
Unpacking libglvnd0:armhf (1.4.0-1) ...
Selecting previously unselected package libwayland-server0:armhf.
Preparing to unpack .../27-libwayland-server0_1.20.0-1_armhf.deb ...
Unpacking libwayland-server0:armhf (1.20.0-1) ...
Selecting previously unselected package libgbm1:armhf.
Preparing to unpack .../28-libgbm1_21.3.7-1+rpi1_armhf.deb ...
Unpacking libgbm1:armhf (21.3.7-1+rpi1) ...
Selecting previously unselected package libglapi-mesa:armhf.
Preparing to unpack .../29-libglapi-mesa_21.3.7-1+rpi1_armhf.deb ...
Unpacking libglapi-mesa:armhf (21.3.7-1+rpi1) ...
Selecting previously unselected package libwayland-client0:armhf.
Preparing to unpack .../30-libwayland-client0_1.20.0-1_armhf.deb ...
Unpacking libwayland-client0:armhf (1.20.0-1) ...
Selecting previously unselected package libxau6:armhf.
Preparing to unpack .../31-libxau6_1%3a1.0.9-1_armhf.deb ...
Unpacking libxau6:armhf (1:1.0.9-1) ...
Selecting previously unselected package libmd0:armhf.
Preparing to unpack .../32-libmd0_1.0.4-1_armhf.deb ...
Unpacking libmd0:armhf (1.0.4-1) ...
Selecting previously unselected package libbsd0:armhf.
Preparing to unpack .../33-libbsd0_0.11.5-1_armhf.deb ...
Unpacking libbsd0:armhf (0.11.5-1) ...
Selecting previously unselected package libxdmcp6:armhf.
Preparing to unpack .../34-libxdmcp6_1%3a1.1.2-3_armhf.deb ...
Unpacking libxdmcp6:armhf (1:1.1.2-3) ...
Selecting previously unselected package libxcb1:armhf.
Preparing to unpack .../35-libxcb1_1.14-3_armhf.deb ...
Unpacking libxcb1:armhf (1.14-3) ...
Selecting previously unselected package libx11-data.
Preparing to unpack .../36-libx11-data_2%3a1.7.2-2_all.deb ...
Unpacking libx11-data (2:1.7.2-2) ...
Selecting previously unselected package libx11-6:armhf.
Preparing to unpack .../37-libx11-6_2%3a1.7.2-2_armhf.deb ...
Unpacking libx11-6:armhf (2:1.7.2-2) ...
Selecting previously unselected package libx11-xcb1:armhf.
Preparing to unpack .../38-libx11-xcb1_2%3a1.7.2-2_armhf.deb ...
Unpacking libx11-xcb1:armhf (2:1.7.2-2) ...
Selecting previously unselected package libxcb-dri2-0:armhf.
Preparing to unpack .../39-libxcb-dri2-0_1.14-3_armhf.deb ...
Unpacking libxcb-dri2-0:armhf (1.14-3) ...
Selecting previously unselected package libxcb-dri3-0:armhf.
Preparing to unpack .../40-libxcb-dri3-0_1.14-3_armhf.deb ...
Unpacking libxcb-dri3-0:armhf (1.14-3) ...
Selecting previously unselected package libxcb-present0:armhf.
Preparing to unpack .../41-libxcb-present0_1.14-3_armhf.deb ...
Unpacking libxcb-present0:armhf (1.14-3) ...
Selecting previously unselected package libxcb-sync1:armhf.
Preparing to unpack .../42-libxcb-sync1_1.14-3_armhf.deb ...
Unpacking libxcb-sync1:armhf (1.14-3) ...
Selecting previously unselected package libxcb-xfixes0:armhf.
Preparing to unpack .../43-libxcb-xfixes0_1.14-3_armhf.deb ...
Unpacking libxcb-xfixes0:armhf (1.14-3) ...
Selecting previously unselected package libxshmfence1:armhf.
Preparing to unpack .../44-libxshmfence1_1.3-1_armhf.deb ...
Unpacking libxshmfence1:armhf (1.3-1) ...
Selecting previously unselected package libegl-mesa0:armhf.
Preparing to unpack .../45-libegl-mesa0_21.3.7-1+rpi1_armhf.deb ...
Unpacking libegl-mesa0:armhf (21.3.7-1+rpi1) ...
Selecting previously unselected package libegl1:armhf.
Preparing to unpack .../46-libegl1_1.4.0-1_armhf.deb ...
Unpacking libegl1:armhf (1.4.0-1) ...
Selecting previously unselected package libgles2:armhf.
Preparing to unpack .../47-libgles2_1.4.0-1_armhf.deb ...
Unpacking libgles2:armhf (1.4.0-1) ...
Selecting previously unselected package libgraphite2-3:armhf.
Preparing to unpack .../48-libgraphite2-3_1.3.14-1_armhf.deb ...
Unpacking libgraphite2-3:armhf (1.3.14-1) ...
Selecting previously unselected package libharfbuzz0b:armhf.
Preparing to unpack .../49-libharfbuzz0b_2.7.4-1_armhf.deb ...
Unpacking libharfbuzz0b:armhf (2.7.4-1) ...
Selecting previously unselected package x11-common.
Preparing to unpack .../50-x11-common_1%3a7.7+23_all.deb ...
Unpacking x11-common (1:7.7+23) ...
Selecting previously unselected package libice6:armhf.
Preparing to unpack .../51-libice6_2%3a1.0.10-1_armhf.deb ...
Unpacking libice6:armhf (2:1.0.10-1) ...
Selecting previously unselected package libevdev2:armhf.
Preparing to unpack .../52-libevdev2_1.12.0+dfsg-1_armhf.deb ...
Unpacking libevdev2:armhf (1.12.0+dfsg-1) ...
Selecting previously unselected package libmtdev1:armhf.
Preparing to unpack .../53-libmtdev1_1.1.6-1_armhf.deb ...
Unpacking libmtdev1:armhf (1.1.6-1) ...
Selecting previously unselected package libgudev-1.0-0:armhf.
Preparing to unpack .../54-libgudev-1.0-0_237-2_armhf.deb ...
Unpacking libgudev-1.0-0:armhf (237-2) ...
Selecting previously unselected package libwacom-common.
Preparing to unpack .../55-libwacom-common_2.1.0-2_all.deb ...
Unpacking libwacom-common (2.1.0-2) ...
Selecting previously unselected package libwacom9:armhf.
Preparing to unpack .../56-libwacom9_2.1.0-2_armhf.deb ...
Unpacking libwacom9:armhf (2.1.0-2) ...
Selecting previously unselected package libinput-bin.
Preparing to unpack .../57-libinput-bin_1.20.0-1_armhf.deb ...
Unpacking libinput-bin (1.20.0-1) ...
Selecting previously unselected package libinput10:armhf.
Preparing to unpack .../58-libinput10_1.20.0-1_armhf.deb ...
Unpacking libinput10:armhf (1.20.0-1) ...
Selecting previously unselected package libjpeg62-turbo:armhf.
Preparing to unpack .../59-libjpeg62-turbo_1%3a2.1.2-1_armhf.deb ...
Unpacking libjpeg62-turbo:armhf (1:2.1.2-1) ...
Selecting previously unselected package libmd4c0:armhf.
Preparing to unpack .../60-libmd4c0_0.4.8-1_armhf.deb ...
Unpacking libmd4c0:armhf (0.4.8-1) ...
Selecting previously unselected package libqt5dbus5:armhf.
Preparing to unpack .../61-libqt5dbus5_5.15.2+dfsg-15+rpi1_armhf.deb ...
Unpacking libqt5dbus5:armhf (5.15.2+dfsg-15+rpi1) ...
Selecting previously unselected package libqt5network5:armhf.
Preparing to unpack .../62-libqt5network5_5.15.2+dfsg-15+rpi1_armhf.deb ...
Unpacking libqt5network5:armhf (5.15.2+dfsg-15+rpi1) ...
Selecting previously unselected package libsm6:armhf.
Preparing to unpack .../63-libsm6_2%3a1.2.3-1_armhf.deb ...
Unpacking libsm6:armhf (2:1.2.3-1) ...
Selecting previously unselected package libxcb-icccm4:armhf.
Preparing to unpack .../64-libxcb-icccm4_0.4.1-1.1_armhf.deb ...
Unpacking libxcb-icccm4:armhf (0.4.1-1.1) ...
Selecting previously unselected package libxcb-shm0:armhf.
Preparing to unpack .../65-libxcb-shm0_1.14-3_armhf.deb ...
Unpacking libxcb-shm0:armhf (1.14-3) ...
Selecting previously unselected package libxcb-util1:armhf.
Preparing to unpack .../66-libxcb-util1_0.4.0-1_armhf.deb ...
Unpacking libxcb-util1:armhf (0.4.0-1) ...
Selecting previously unselected package libxcb-image0:armhf.
Preparing to unpack .../67-libxcb-image0_0.4.0-2_armhf.deb ...
Unpacking libxcb-image0:armhf (0.4.0-2) ...
Selecting previously unselected package libxcb-keysyms1:armhf.
Preparing to unpack .../68-libxcb-keysyms1_0.4.0-1+b2_armhf.deb ...
Unpacking libxcb-keysyms1:armhf (0.4.0-1+b2) ...
Selecting previously unselected package libxcb-randr0:armhf.
Preparing to unpack .../69-libxcb-randr0_1.14-3_armhf.deb ...
Unpacking libxcb-randr0:armhf (1.14-3) ...
Selecting previously unselected package libxcb-render0:armhf.
Preparing to unpack .../70-libxcb-render0_1.14-3_armhf.deb ...
Unpacking libxcb-render0:armhf (1.14-3) ...
Selecting previously unselected package libxcb-render-util0:armhf.
Preparing to unpack .../71-libxcb-render-util0_0.3.9-1+b1_armhf.deb ...
Unpacking libxcb-render-util0:armhf (0.3.9-1+b1) ...
Selecting previously unselected package libxcb-shape0:armhf.
Preparing to unpack .../72-libxcb-shape0_1.14-3_armhf.deb ...
Unpacking libxcb-shape0:armhf (1.14-3) ...
Selecting previously unselected package libxcb-xinerama0:armhf.
Preparing to unpack .../73-libxcb-xinerama0_1.14-3_armhf.deb ...
Unpacking libxcb-xinerama0:armhf (1.14-3) ...
Selecting previously unselected package libxcb-xinput0:armhf.
Preparing to unpack .../74-libxcb-xinput0_1.14-3_armhf.deb ...
Unpacking libxcb-xinput0:armhf (1.14-3) ...
Selecting previously unselected package libxcb-xkb1:armhf.
Preparing to unpack .../75-libxcb-xkb1_1.14-3_armhf.deb ...
Unpacking libxcb-xkb1:armhf (1.14-3) ...
Selecting previously unselected package xkb-data.
Preparing to unpack .../76-xkb-data_2.33-1_all.deb ...
Unpacking xkb-data (2.33-1) ...
Selecting previously unselected package libxkbcommon0:armhf.
Preparing to unpack .../77-libxkbcommon0_1.4.0-1_armhf.deb ...
Unpacking libxkbcommon0:armhf (1.4.0-1) ...
Selecting previously unselected package libxkbcommon-x11-0:armhf.
Preparing to unpack .../78-libxkbcommon-x11-0_1.4.0-1_armhf.deb ...
Unpacking libxkbcommon-x11-0:armhf (1.4.0-1) ...
Selecting previously unselected package libxrender1:armhf.
Preparing to unpack .../79-libxrender1_1%3a0.9.10-1_armhf.deb ...
Unpacking libxrender1:armhf (1:0.9.10-1) ...
Selecting previously unselected package libqt5gui5:armhf.
Preparing to unpack .../80-libqt5gui5_5.15.2+dfsg-15+rpi1_armhf.deb ...
Unpacking libqt5gui5:armhf (5.15.2+dfsg-15+rpi1) ...
Selecting previously unselected package libqt5widgets5:armhf.
Preparing to unpack .../81-libqt5widgets5_5.15.2+dfsg-15+rpi1_armhf.deb ...
Unpacking libqt5widgets5:armhf (5.15.2+dfsg-15+rpi1) ...
Selecting previously unselected package libqt5svg5:armhf.
Preparing to unpack .../82-libqt5svg5_5.15.2-4_armhf.deb ...
Unpacking libqt5svg5:armhf (5.15.2-4) ...
Selecting previously unselected package poppler-data.
Preparing to unpack .../83-poppler-data_0.4.11-1_all.deb ...
Unpacking poppler-data (0.4.11-1) ...
Selecting previously unselected package libpython3.9-minimal:armhf.
Preparing to unpack .../84-libpython3.9-minimal_3.9.10-2+rpi1_armhf.deb ...
Unpacking libpython3.9-minimal:armhf (3.9.10-2+rpi1) ...
Selecting previously unselected package python3.9-minimal.
Preparing to unpack .../85-python3.9-minimal_3.9.10-2+rpi1_armhf.deb ...
Unpacking python3.9-minimal (3.9.10-2+rpi1) ...
Setting up libpython3.9-minimal:armhf (3.9.10-2+rpi1) ...
Setting up libexpat1:armhf (2.4.4-1) ...
Setting up python3.9-minimal (3.9.10-2+rpi1) ...
Selecting previously unselected package python3-minimal.
(Reading database ... 18367 files and directories currently installed.)
Preparing to unpack .../0-python3-minimal_3.9.8-1_armhf.deb ...
Unpacking python3-minimal (3.9.8-1) ...
Selecting previously unselected package media-types.
Preparing to unpack .../1-media-types_6.0.0_all.deb ...
Unpacking media-types (6.0.0) ...
Selecting previously unselected package libmpdec3:armhf.
Preparing to unpack .../2-libmpdec3_2.5.1-2+rpi1_armhf.deb ...
Unpacking libmpdec3:armhf (2.5.1-2+rpi1) ...
Selecting previously unselected package libpython3.9-stdlib:armhf.
Preparing to unpack .../3-libpython3.9-stdlib_3.9.10-2+rpi1_armhf.deb ...
Unpacking libpython3.9-stdlib:armhf (3.9.10-2+rpi1) ...
Selecting previously unselected package python3.9.
Preparing to unpack .../4-python3.9_3.9.10-2+rpi1_armhf.deb ...
Unpacking python3.9 (3.9.10-2+rpi1) ...
Selecting previously unselected package libpython3-stdlib:armhf.
Preparing to unpack .../5-libpython3-stdlib_3.9.8-1_armhf.deb ...
Unpacking libpython3-stdlib:armhf (3.9.8-1) ...
Setting up python3-minimal (3.9.8-1) ...
Selecting previously unselected package python3.
(Reading database ... 18765 files and directories currently installed.)
Preparing to unpack .../000-python3_3.9.8-1_armhf.deb ...
Unpacking python3 (3.9.8-1) ...
Selecting previously unselected package libpython3.10-minimal:armhf.
Preparing to unpack .../001-libpython3.10-minimal_3.10.2-1_armhf.deb ...
Unpacking libpython3.10-minimal:armhf (3.10.2-1) ...
Selecting previously unselected package python3.10-minimal.
Preparing to unpack .../002-python3.10-minimal_3.10.2-1_armhf.deb ...
Unpacking python3.10-minimal (3.10.2-1) ...
Selecting previously unselected package tex-common.
Preparing to unpack .../003-tex-common_6.17_all.deb ...
Unpacking tex-common (6.17) ...
Selecting previously unselected package libuchardet0:armhf.
Preparing to unpack .../004-libuchardet0_0.0.7-1_armhf.deb ...
Unpacking libuchardet0:armhf (0.0.7-1) ...
Selecting previously unselected package groff-base.
Preparing to unpack .../005-groff-base_1.22.4-8_armhf.deb ...
Unpacking groff-base (1.22.4-8) ...
Selecting previously unselected package bsdextrautils.
Preparing to unpack .../006-bsdextrautils_2.37.3-1_armhf.deb ...
Unpacking bsdextrautils (2.37.3-1) ...
Selecting previously unselected package libpipeline1:armhf.
Preparing to unpack .../007-libpipeline1_1.5.5-1_armhf.deb ...
Unpacking libpipeline1:armhf (1.5.5-1) ...
Selecting previously unselected package man-db.
Preparing to unpack .../008-man-db_2.10.1-1_armhf.deb ...
Unpacking man-db (2.10.1-1) ...
Selecting previously unselected package libmagic-mgc.
Preparing to unpack .../009-libmagic-mgc_1%3a5.41-2_armhf.deb ...
Unpacking libmagic-mgc (1:5.41-2) ...
Selecting previously unselected package libmagic1:armhf.
Preparing to unpack .../010-libmagic1_1%3a5.41-2_armhf.deb ...
Unpacking libmagic1:armhf (1:5.41-2) ...
Selecting previously unselected package file.
Preparing to unpack .../011-file_1%3a5.41-2_armhf.deb ...
Unpacking file (1:5.41-2) ...
Selecting previously unselected package gettext-base.
Preparing to unpack .../012-gettext-base_0.21-4_armhf.deb ...
Unpacking gettext-base (0.21-4) ...
Selecting previously unselected package libpam-systemd:armhf.
Preparing to unpack .../013-libpam-systemd_250.3-2+rpi1_armhf.deb ...
Unpacking libpam-systemd:armhf (250.3-2+rpi1) ...
Selecting previously unselected package hicolor-icon-theme.
Preparing to unpack .../014-hicolor-icon-theme_0.17-2_all.deb ...
Unpacking hicolor-icon-theme (0.17-2) ...
Selecting previously unselected package libgdk-pixbuf2.0-common.
Preparing to unpack .../015-libgdk-pixbuf2.0-common_2.42.6+dfsg-2_all.deb ...
Unpacking libgdk-pixbuf2.0-common (2.42.6+dfsg-2) ...
Selecting previously unselected package libdeflate0:armhf.
Preparing to unpack .../016-libdeflate0_1.10-2_armhf.deb ...
Unpacking libdeflate0:armhf (1.10-2) ...
Selecting previously unselected package libjbig0:armhf.
Preparing to unpack .../017-libjbig0_2.1-3.1+b2_armhf.deb ...
Unpacking libjbig0:armhf (2.1-3.1+b2) ...
Selecting previously unselected package libwebp6:armhf.
Preparing to unpack .../018-libwebp6_0.6.1-2.1_armhf.deb ...
Unpacking libwebp6:armhf (0.6.1-2.1) ...
Selecting previously unselected package libtiff5:armhf.
Preparing to unpack .../019-libtiff5_4.3.0-4_armhf.deb ...
Unpacking libtiff5:armhf (4.3.0-4) ...
Selecting previously unselected package libgdk-pixbuf-2.0-0:armhf.
Preparing to unpack .../020-libgdk-pixbuf-2.0-0_2.42.6+dfsg-2_armhf.deb ...
Unpacking libgdk-pixbuf-2.0-0:armhf (2.42.6+dfsg-2) ...
Selecting previously unselected package gtk-update-icon-cache.
Preparing to unpack .../021-gtk-update-icon-cache_3.24.33-1_armhf.deb ...
Unpacking gtk-update-icon-cache (3.24.33-1) ...
Selecting previously unselected package adwaita-icon-theme.
Preparing to unpack .../022-adwaita-icon-theme_42~really41.0-1_all.deb ...
Unpacking adwaita-icon-theme (42~really41.0-1) ...
Selecting previously unselected package aglfn.
Preparing to unpack .../023-aglfn_1.7+git20191031.4036a9c-2_all.deb ...
Unpacking aglfn (1.7+git20191031.4036a9c-2) ...
Selecting previously unselected package libsigsegv2:armhf.
Preparing to unpack .../024-libsigsegv2_2.14-1_armhf.deb ...
Unpacking libsigsegv2:armhf (2.14-1) ...
Selecting previously unselected package m4.
Preparing to unpack .../025-m4_1.4.18-5_armhf.deb ...
Unpacking m4 (1.4.18-5) ...
Selecting previously unselected package autoconf.
Preparing to unpack .../026-autoconf_2.71-2_all.deb ...
Unpacking autoconf (2.71-2) ...
Selecting previously unselected package autotools-dev.
Preparing to unpack .../027-autotools-dev_20220109.1_all.deb ...
Unpacking autotools-dev (20220109.1) ...
Selecting previously unselected package automake.
Preparing to unpack .../028-automake_1%3a1.16.5-1.1_all.deb ...
Unpacking automake (1:1.16.5-1.1) ...
Selecting previously unselected package autopoint.
Preparing to unpack .../029-autopoint_0.21-4_all.deb ...
Unpacking autopoint (0.21-4) ...
Selecting previously unselected package cython3.
Preparing to unpack .../030-cython3_0.29.28-1_armhf.deb ...
Unpacking cython3 (0.29.28-1) ...
Selecting previously unselected package d-shlibs.
Preparing to unpack .../031-d-shlibs_0.104_all.deb ...
Unpacking d-shlibs (0.104) ...
Selecting previously unselected package dbus-user-session.
Preparing to unpack .../032-dbus-user-session_1.14.0-1_armhf.deb ...
Unpacking dbus-user-session (1.14.0-1) ...
Selecting previously unselected package libdconf1:armhf.
Preparing to unpack .../033-libdconf1_0.40.0-3_armhf.deb ...
Unpacking libdconf1:armhf (0.40.0-3) ...
Selecting previously unselected package dconf-service.
Preparing to unpack .../034-dconf-service_0.40.0-3_armhf.deb ...
Unpacking dconf-service (0.40.0-3) ...
Selecting previously unselected package dconf-gsettings-backend:armhf.
Preparing to unpack .../035-dconf-gsettings-backend_0.40.0-3_armhf.deb ...
Unpacking dconf-gsettings-backend:armhf (0.40.0-3) ...
Selecting previously unselected package libdebhelper-perl.
Preparing to unpack .../036-libdebhelper-perl_13.6_all.deb ...
Unpacking libdebhelper-perl (13.6) ...
Selecting previously unselected package libtool.
Preparing to unpack .../037-libtool_2.4.6-15_all.deb ...
Unpacking libtool (2.4.6-15) ...
Selecting previously unselected package dh-autoreconf.
Preparing to unpack .../038-dh-autoreconf_20_all.deb ...
Unpacking dh-autoreconf (20) ...
Selecting previously unselected package libarchive-zip-perl.
Preparing to unpack .../039-libarchive-zip-perl_1.68-1_all.deb ...
Unpacking libarchive-zip-perl (1.68-1) ...
Selecting previously unselected package libsub-override-perl.
Preparing to unpack .../040-libsub-override-perl_0.09-2_all.deb ...
Unpacking libsub-override-perl (0.09-2) ...
Selecting previously unselected package libfile-stripnondeterminism-perl.
Preparing to unpack .../041-libfile-stripnondeterminism-perl_1.13.0-1_all.deb ...
Unpacking libfile-stripnondeterminism-perl (1.13.0-1) ...
Selecting previously unselected package dh-strip-nondeterminism.
Preparing to unpack .../042-dh-strip-nondeterminism_1.13.0-1_all.deb ...
Unpacking dh-strip-nondeterminism (1.13.0-1) ...
Selecting previously unselected package libelf1:armhf.
Preparing to unpack .../043-libelf1_0.186-1_armhf.deb ...
Unpacking libelf1:armhf (0.186-1) ...
Selecting previously unselected package dwz.
Preparing to unpack .../044-dwz_0.14-1_armhf.deb ...
Unpacking dwz (0.14-1) ...
Selecting previously unselected package gettext.
Preparing to unpack .../045-gettext_0.21-4_armhf.deb ...
Unpacking gettext (0.21-4) ...
Selecting previously unselected package intltool-debian.
Preparing to unpack .../046-intltool-debian_0.35.0+20060710.5_all.deb ...
Unpacking intltool-debian (0.35.0+20060710.5) ...
Selecting previously unselected package po-debconf.
Preparing to unpack .../047-po-debconf_1.0.21+nmu1_all.deb ...
Unpacking po-debconf (1.0.21+nmu1) ...
Selecting previously unselected package debhelper.
Preparing to unpack .../048-debhelper_13.6_all.deb ...
Unpacking debhelper (13.6) ...
Selecting previously unselected package python3-lib2to3.
Preparing to unpack .../049-python3-lib2to3_3.9.10-1_all.deb ...
Unpacking python3-lib2to3 (3.9.10-1) ...
Selecting previously unselected package python3-distutils.
Preparing to unpack .../050-python3-distutils_3.9.10-1_all.deb ...
Unpacking python3-distutils (3.9.10-1) ...
Selecting previously unselected package dh-python.
Preparing to unpack .../051-dh-python_5.20220215_all.deb ...
Unpacking dh-python (5.20220215) ...
Selecting previously unselected package fonts-gfs-baskerville.
Preparing to unpack .../052-fonts-gfs-baskerville_1.1-6_all.deb ...
Unpacking fonts-gfs-baskerville (1.1-6) ...
Selecting previously unselected package fonts-gfs-porson.
Preparing to unpack .../053-fonts-gfs-porson_1.1-7_all.deb ...
Unpacking fonts-gfs-porson (1.1-7) ...
Selecting previously unselected package fonts-lmodern.
Preparing to unpack .../054-fonts-lmodern_2.004.5-6.1_all.deb ...
Unpacking fonts-lmodern (2.004.5-6.1) ...
Selecting previously unselected package libgs9-common.
Preparing to unpack .../055-libgs9-common_9.55.0~dfsg-3_all.deb ...
Unpacking libgs9-common (9.55.0~dfsg-3) ...
Selecting previously unselected package libavahi-common-data:armhf.
Preparing to unpack .../056-libavahi-common-data_0.8-5_armhf.deb ...
Unpacking libavahi-common-data:armhf (0.8-5) ...
Selecting previously unselected package libavahi-common3:armhf.
Preparing to unpack .../057-libavahi-common3_0.8-5_armhf.deb ...
Unpacking libavahi-common3:armhf (0.8-5) ...
Selecting previously unselected package libavahi-client3:armhf.
Preparing to unpack .../058-libavahi-client3_0.8-5_armhf.deb ...
Unpacking libavahi-client3:armhf (0.8-5) ...
Selecting previously unselected package libcups2:armhf.
Preparing to unpack .../059-libcups2_2.4.1op1-2_armhf.deb ...
Unpacking libcups2:armhf (2.4.1op1-2) ...
Selecting previously unselected package libidn12:armhf.
Preparing to unpack .../060-libidn12_1.38-4_armhf.deb ...
Unpacking libidn12:armhf (1.38-4) ...
Selecting previously unselected package libijs-0.35:armhf.
Preparing to unpack .../061-libijs-0.35_0.35-15_armhf.deb ...
Unpacking libijs-0.35:armhf (0.35-15) ...
Selecting previously unselected package libjbig2dec0:armhf.
Preparing to unpack .../062-libjbig2dec0_0.19-3+b2_armhf.deb ...
Unpacking libjbig2dec0:armhf (0.19-3+b2) ...
Selecting previously unselected package liblcms2-2:armhf.
Preparing to unpack .../063-liblcms2-2_2.12~rc1-2_armhf.deb ...
Unpacking liblcms2-2:armhf (2.12~rc1-2) ...
Selecting previously unselected package libopenjp2-7:armhf.
Preparing to unpack .../064-libopenjp2-7_2.4.0-6_armhf.deb ...
Unpacking libopenjp2-7:armhf (2.4.0-6) ...
Selecting previously unselected package libpaper1:armhf.
Preparing to unpack .../065-libpaper1_1.1.28_armhf.deb ...
Unpacking libpaper1:armhf (1.1.28) ...
Selecting previously unselected package libgs9:armhf.
Preparing to unpack .../066-libgs9_9.55.0~dfsg-3_armhf.deb ...
Unpacking libgs9:armhf (9.55.0~dfsg-3) ...
Selecting previously unselected package ghostscript.
Preparing to unpack .../067-ghostscript_9.55.0~dfsg-3_armhf.deb ...
Unpacking ghostscript (9.55.0~dfsg-3) ...
Selecting previously unselected package gnuplot-data.
Preparing to unpack .../068-gnuplot-data_5.4.2+dfsg2-2_all.deb ...
Unpacking gnuplot-data (5.4.2+dfsg2-2) ...
Selecting previously unselected package libpixman-1-0:armhf.
Preparing to unpack .../069-libpixman-1-0_0.40.0-1_armhf.deb ...
Unpacking libpixman-1-0:armhf (0.40.0-1) ...
Selecting previously unselected package libxext6:armhf.
Preparing to unpack .../070-libxext6_2%3a1.3.4-1_armhf.deb ...
Unpacking libxext6:armhf (2:1.3.4-1) ...
Selecting previously unselected package libcairo2:armhf.
Preparing to unpack .../071-libcairo2_1.16.0-5_armhf.deb ...
Unpacking libcairo2:armhf (1.16.0-5) ...
Selecting previously unselected package libedit2:armhf.
Preparing to unpack .../072-libedit2_3.1-20210910-1_armhf.deb ...
Unpacking libedit2:armhf (3.1-20210910-1) ...
Selecting previously unselected package libxpm4:armhf.
Preparing to unpack .../073-libxpm4_1%3a3.5.12-1_armhf.deb ...
Unpacking libxpm4:armhf (1:3.5.12-1) ...
Selecting previously unselected package libgd3:armhf.
Preparing to unpack .../074-libgd3_2.3.0-2_armhf.deb ...
Unpacking libgd3:armhf (2.3.0-2) ...
Selecting previously unselected package liblua5.4-0:armhf.
Preparing to unpack .../075-liblua5.4-0_5.4.4-1_armhf.deb ...
Unpacking liblua5.4-0:armhf (5.4.4-1) ...
Selecting previously unselected package libfribidi0:armhf.
Preparing to unpack .../076-libfribidi0_1.0.8-2_armhf.deb ...
Unpacking libfribidi0:armhf (1.0.8-2) ...
Selecting previously unselected package libthai-data.
Preparing to unpack .../077-libthai-data_0.1.29-1_all.deb ...
Unpacking libthai-data (0.1.29-1) ...
Selecting previously unselected package libdatrie1:armhf.
Preparing to unpack .../078-libdatrie1_0.2.13-2+b2_armhf.deb ...
Unpacking libdatrie1:armhf (0.2.13-2+b2) ...
Selecting previously unselected package libthai0:armhf.
Preparing to unpack .../079-libthai0_0.1.29-1_armhf.deb ...
Unpacking libthai0:armhf (0.1.29-1) ...
Selecting previously unselected package libpango-1.0-0:armhf.
Preparing to unpack .../080-libpango-1.0-0_1.50.4+ds-1_armhf.deb ...
Unpacking libpango-1.0-0:armhf (1.50.4+ds-1) ...
Selecting previously unselected package libpangoft2-1.0-0:armhf.
Preparing to unpack .../081-libpangoft2-1.0-0_1.50.4+ds-1_armhf.deb ...
Unpacking libpangoft2-1.0-0:armhf (1.50.4+ds-1) ...
Selecting previously unselected package libpangocairo-1.0-0:armhf.
Preparing to unpack .../082-libpangocairo-1.0-0_1.50.4+ds-1_armhf.deb ...
Unpacking libpangocairo-1.0-0:armhf (1.50.4+ds-1) ...
Selecting previously unselected package libqt5printsupport5:armhf.
Preparing to unpack .../083-libqt5printsupport5_5.15.2+dfsg-15+rpi1_armhf.deb ...
Unpacking libqt5printsupport5:armhf (5.15.2+dfsg-15+rpi1) ...
Selecting previously unselected package libwxbase3.0-0v5:armhf.
Preparing to unpack .../084-libwxbase3.0-0v5_3.0.5.1+dfsg-3_armhf.deb ...
Unpacking libwxbase3.0-0v5:armhf (3.0.5.1+dfsg-3) ...
Selecting previously unselected package libxcb-glx0:armhf.
Preparing to unpack .../085-libxcb-glx0_1.14-3_armhf.deb ...
Unpacking libxcb-glx0:armhf (1.14-3) ...
Selecting previously unselected package libxfixes3:armhf.
Preparing to unpack .../086-libxfixes3_1%3a6.0.0-1_armhf.deb ...
Unpacking libxfixes3:armhf (1:6.0.0-1) ...
Selecting previously unselected package libxxf86vm1:armhf.
Preparing to unpack .../087-libxxf86vm1_1%3a1.1.4-1+b2_armhf.deb ...
Unpacking libxxf86vm1:armhf (1:1.1.4-1+b2) ...
Selecting previously unselected package libdrm-amdgpu1:armhf.
Preparing to unpack .../088-libdrm-amdgpu1_2.4.110-1+rpi1_armhf.deb ...
Unpacking libdrm-amdgpu1:armhf (2.4.110-1+rpi1) ...
Selecting previously unselected package libdrm-nouveau2:armhf.
Preparing to unpack .../089-libdrm-nouveau2_2.4.110-1+rpi1_armhf.deb ...
Unpacking libdrm-nouveau2:armhf (2.4.110-1+rpi1) ...
Selecting previously unselected package libdrm-radeon1:armhf.
Preparing to unpack .../090-libdrm-radeon1_2.4.110-1+rpi1_armhf.deb ...
Unpacking libdrm-radeon1:armhf (2.4.110-1+rpi1) ...
Selecting previously unselected package libz3-4:armhf.
Preparing to unpack .../091-libz3-4_4.8.12-1_armhf.deb ...
Unpacking libz3-4:armhf (4.8.12-1) ...
Selecting previously unselected package libllvm13:armhf.
Preparing to unpack .../092-libllvm13_1%3a13.0.1-3+rpi1_armhf.deb ...
Unpacking libllvm13:armhf (1:13.0.1-3+rpi1) ...
Selecting previously unselected package libsensors-config.
Preparing to unpack .../093-libsensors-config_1%3a3.6.0-7_all.deb ...
Unpacking libsensors-config (1:3.6.0-7) ...
Selecting previously unselected package libsensors5:armhf.
Preparing to unpack .../094-libsensors5_1%3a3.6.0-7_armhf.deb ...
Unpacking libsensors5:armhf (1:3.6.0-7) ...
Selecting previously unselected package libvulkan1:armhf.
Preparing to unpack .../095-libvulkan1_1.3.204.0-1_armhf.deb ...
Unpacking libvulkan1:armhf (1.3.204.0-1) ...
Selecting previously unselected package libgl1-mesa-dri:armhf.
Preparing to unpack .../096-libgl1-mesa-dri_21.3.7-1+rpi1_armhf.deb ...
Unpacking libgl1-mesa-dri:armhf (21.3.7-1+rpi1) ...
Selecting previously unselected package libglx-mesa0:armhf.
Preparing to unpack .../097-libglx-mesa0_21.3.7-1+rpi1_armhf.deb ...
Unpacking libglx-mesa0:armhf (21.3.7-1+rpi1) ...
Selecting previously unselected package libglx0:armhf.
Preparing to unpack .../098-libglx0_1.4.0-1_armhf.deb ...
Unpacking libglx0:armhf (1.4.0-1) ...
Selecting previously unselected package libgl1:armhf.
Preparing to unpack .../099-libgl1_1.4.0-1_armhf.deb ...
Unpacking libgl1:armhf (1.4.0-1) ...
Selecting previously unselected package libatk1.0-data.
Preparing to unpack .../100-libatk1.0-data_2.36.0-3_all.deb ...
Unpacking libatk1.0-data (2.36.0-3) ...
Selecting previously unselected package libatk1.0-0:armhf.
Preparing to unpack .../101-libatk1.0-0_2.36.0-3_armhf.deb ...
Unpacking libatk1.0-0:armhf (2.36.0-3) ...
Selecting previously unselected package libxi6:armhf.
Preparing to unpack .../102-libxi6_2%3a1.8-1_armhf.deb ...
Unpacking libxi6:armhf (2:1.8-1) ...
Selecting previously unselected package libatspi2.0-0:armhf.
Preparing to unpack .../103-libatspi2.0-0_2.42.0-2_armhf.deb ...
Unpacking libatspi2.0-0:armhf (2.42.0-2) ...
Selecting previously unselected package libatk-bridge2.0-0:armhf.
Preparing to unpack .../104-libatk-bridge2.0-0_2.38.0-3_armhf.deb ...
Unpacking libatk-bridge2.0-0:armhf (2.38.0-3) ...
Selecting previously unselected package libcairo-gobject2:armhf.
Preparing to unpack .../105-libcairo-gobject2_1.16.0-5_armhf.deb ...
Unpacking libcairo-gobject2:armhf (1.16.0-5) ...
Selecting previously unselected package libcolord2:armhf.
Preparing to unpack .../106-libcolord2_1.4.6-1_armhf.deb ...
Unpacking libcolord2:armhf (1.4.6-1) ...
Selecting previously unselected package libepoxy0:armhf.
Preparing to unpack .../107-libepoxy0_1.5.9-2_armhf.deb ...
Unpacking libepoxy0:armhf (1.5.9-2) ...
Selecting previously unselected package libwayland-cursor0:armhf.
Preparing to unpack .../108-libwayland-cursor0_1.20.0-1_armhf.deb ...
Unpacking libwayland-cursor0:armhf (1.20.0-1) ...
Selecting previously unselected package libwayland-egl1:armhf.
Preparing to unpack .../109-libwayland-egl1_1.20.0-1_armhf.deb ...
Unpacking libwayland-egl1:armhf (1.20.0-1) ...
Selecting previously unselected package libxcomposite1:armhf.
Preparing to unpack .../110-libxcomposite1_1%3a0.4.5-1_armhf.deb ...
Unpacking libxcomposite1:armhf (1:0.4.5-1) ...
Selecting previously unselected package libxcursor1:armhf.
Preparing to unpack .../111-libxcursor1_1%3a1.2.0-2_armhf.deb ...
Unpacking libxcursor1:armhf (1:1.2.0-2) ...
Selecting previously unselected package libxdamage1:armhf.
Preparing to unpack .../112-libxdamage1_1%3a1.1.5-2_armhf.deb ...
Unpacking libxdamage1:armhf (1:1.1.5-2) ...
Selecting previously unselected package libxinerama1:armhf.
Preparing to unpack .../113-libxinerama1_2%3a1.1.4-3_armhf.deb ...
Unpacking libxinerama1:armhf (2:1.1.4-3) ...
Selecting previously unselected package libxrandr2:armhf.
Preparing to unpack .../114-libxrandr2_2%3a1.5.2-1_armhf.deb ...
Unpacking libxrandr2:armhf (2:1.5.2-1) ...
Selecting previously unselected package libgtk-3-common.
Preparing to unpack .../115-libgtk-3-common_3.24.33-1_all.deb ...
Unpacking libgtk-3-common (3.24.33-1) ...
Selecting previously unselected package libgtk-3-0:armhf.
Preparing to unpack .../116-libgtk-3-0_3.24.33-1_armhf.deb ...
Unpacking libgtk-3-0:armhf (3.24.33-1) ...
Selecting previously unselected package libnotify4:armhf.
Preparing to unpack .../117-libnotify4_0.7.9-3_armhf.deb ...
Unpacking libnotify4:armhf (0.7.9-3) ...
Selecting previously unselected package libwxgtk3.0-gtk3-0v5:armhf.
Preparing to unpack .../118-libwxgtk3.0-gtk3-0v5_3.0.5.1+dfsg-3_armhf.deb ...
Unpacking libwxgtk3.0-gtk3-0v5:armhf (3.0.5.1+dfsg-3) ...
Selecting previously unselected package gnuplot-qt.
Preparing to unpack .../119-gnuplot-qt_5.4.2+dfsg2-2_armhf.deb ...
Unpacking gnuplot-qt (5.4.2+dfsg2-2) ...
Selecting previously unselected package gnuplot.
Preparing to unpack .../120-gnuplot_5.4.2+dfsg2-2_all.deb ...
Unpacking gnuplot (5.4.2+dfsg2-2) ...
Selecting previously unselected package libapache-pom-java.
Preparing to unpack .../121-libapache-pom-java_18-1_all.deb ...
Unpacking libapache-pom-java (18-1) ...
Selecting previously unselected package libcommons-parent-java.
Preparing to unpack .../122-libcommons-parent-java_43-1_all.deb ...
Unpacking libcommons-parent-java (43-1) ...
Selecting previously unselected package libcommons-logging-java.
Preparing to unpack .../123-libcommons-logging-java_1.2-2_all.deb ...
Unpacking libcommons-logging-java (1.2-2) ...
Selecting previously unselected package libexpat1-dev:armhf.
Preparing to unpack .../124-libexpat1-dev_2.4.4-1_armhf.deb ...
Unpacking libexpat1-dev:armhf (2.4.4-1) ...
Selecting previously unselected package libfontbox-java.
Preparing to unpack .../125-libfontbox-java_1%3a1.8.16-2_all.deb ...
Unpacking libfontbox-java (1:1.8.16-2) ...
Selecting previously unselected package libjs-jquery.
Preparing to unpack .../126-libjs-jquery_3.6.0+dfsg+~3.5.13-1_all.deb ...
Unpacking libjs-jquery (3.6.0+dfsg+~3.5.13-1) ...
Selecting previously unselected package libjs-underscore.
Preparing to unpack .../127-libjs-underscore_1.13.2~dfsg-2_all.deb ...
Unpacking libjs-underscore (1.13.2~dfsg-2) ...
Selecting previously unselected package libjs-sphinxdoc.
Preparing to unpack .../128-libjs-sphinxdoc_4.3.2-1_all.deb ...
Unpacking libjs-sphinxdoc (4.3.2-1) ...
Selecting previously unselected package libkpathsea6:armhf.
Preparing to unpack .../129-libkpathsea6_2021.20210626.59705-1_armhf.deb ...
Unpacking libkpathsea6:armhf (2021.20210626.59705-1) ...
Selecting previously unselected package libpaper-utils.
Preparing to unpack .../130-libpaper-utils_1.1.28_armhf.deb ...
Unpacking libpaper-utils (1.1.28) ...
Selecting previously unselected package libpdfbox-java.
Preparing to unpack .../131-libpdfbox-java_1%3a1.8.16-2_all.deb ...
Unpacking libpdfbox-java (1:1.8.16-2) ...
Selecting previously unselected package libptexenc1:armhf.
Preparing to unpack .../132-libptexenc1_2021.20210626.59705-1_armhf.deb ...
Unpacking libptexenc1:armhf (2021.20210626.59705-1) ...
Selecting previously unselected package libpython3.9:armhf.
Preparing to unpack .../133-libpython3.9_3.9.10-2+rpi1_armhf.deb ...
Unpacking libpython3.9:armhf (3.9.10-2+rpi1) ...
Selecting previously unselected package zlib1g-dev:armhf.
Preparing to unpack .../134-zlib1g-dev_1%3a1.2.11.dfsg-2_armhf.deb ...
Unpacking zlib1g-dev:armhf (1:1.2.11.dfsg-2) ...
Selecting previously unselected package libpython3.9-dev:armhf.
Preparing to unpack .../135-libpython3.9-dev_3.9.10-2+rpi1_armhf.deb ...
Unpacking libpython3.9-dev:armhf (3.9.10-2+rpi1) ...
Selecting previously unselected package libpython3-dev:armhf.
Preparing to unpack .../136-libpython3-dev_3.9.8-1_armhf.deb ...
Unpacking libpython3-dev:armhf (3.9.8-1) ...
Selecting previously unselected package libpython3.10-stdlib:armhf.
Preparing to unpack .../137-libpython3.10-stdlib_3.10.2-1_armhf.deb ...
Unpacking libpython3.10-stdlib:armhf (3.10.2-1) ...
Selecting previously unselected package libpython3.10:armhf.
Preparing to unpack .../138-libpython3.10_3.10.2-1_armhf.deb ...
Unpacking libpython3.10:armhf (3.10.2-1) ...
Selecting previously unselected package libpython3.10-dev:armhf.
Preparing to unpack .../139-libpython3.10-dev_3.10.2-1_armhf.deb ...
Unpacking libpython3.10-dev:armhf (3.10.2-1) ...
Selecting previously unselected package libpython3-all-dev:armhf.
Preparing to unpack .../140-libpython3-all-dev_3.9.8-1_armhf.deb ...
Unpacking libpython3-all-dev:armhf (3.9.8-1) ...
Selecting previously unselected package libsimde-dev.
Preparing to unpack .../141-libsimde-dev_0.7.2-6_all.deb ...
Unpacking libsimde-dev (0.7.2-6) ...
Selecting previously unselected package libsynctex2:armhf.
Preparing to unpack .../142-libsynctex2_2021.20210626.59705-1_armhf.deb ...
Unpacking libsynctex2:armhf (2021.20210626.59705-1) ...
Selecting previously unselected package libteckit0:armhf.
Preparing to unpack .../143-libteckit0_2.5.11+ds1-1_armhf.deb ...
Unpacking libteckit0:armhf (2.5.11+ds1-1) ...
Selecting previously unselected package libtexlua53:armhf.
Preparing to unpack .../144-libtexlua53_2021.20210626.59705-1_armhf.deb ...
Unpacking libtexlua53:armhf (2021.20210626.59705-1) ...
Selecting previously unselected package libtexluajit2:armhf.
Preparing to unpack .../145-libtexluajit2_2021.20210626.59705-1_armhf.deb ...
Unpacking libtexluajit2:armhf (2021.20210626.59705-1) ...
Selecting previously unselected package libxt6:armhf.
Preparing to unpack .../146-libxt6_1%3a1.2.1-1_armhf.deb ...
Unpacking libxt6:armhf (1:1.2.1-1) ...
Selecting previously unselected package libxmu6:armhf.
Preparing to unpack .../147-libxmu6_2%3a1.1.3-3_armhf.deb ...
Unpacking libxmu6:armhf (2:1.1.3-3) ...
Selecting previously unselected package libxaw7:armhf.
Preparing to unpack .../148-libxaw7_2%3a1.0.14-1_armhf.deb ...
Unpacking libxaw7:armhf (2:1.0.14-1) ...
Selecting previously unselected package libzzip-0-13:armhf.
Preparing to unpack .../149-libzzip-0-13_0.13.72+dfsg.1-1.1_armhf.deb ...
Unpacking libzzip-0-13:armhf (0.13.72+dfsg.1-1.1) ...
Selecting previously unselected package preview-latex-style.
Preparing to unpack .../150-preview-latex-style_12.2-1_all.deb ...
Unpacking preview-latex-style (12.2-1) ...
Selecting previously unselected package python3.10.
Preparing to unpack .../151-python3.10_3.10.2-1_armhf.deb ...
Unpacking python3.10 (3.10.2-1) ...
Selecting previously unselected package python3-all.
Preparing to unpack .../152-python3-all_3.9.8-1_armhf.deb ...
Unpacking python3-all (3.9.8-1) ...
Selecting previously unselected package python3.9-dev.
Preparing to unpack .../153-python3.9-dev_3.9.10-2+rpi1_armhf.deb ...
Unpacking python3.9-dev (3.9.10-2+rpi1) ...
Selecting previously unselected package python3-dev.
Preparing to unpack .../154-python3-dev_3.9.8-1_armhf.deb ...
Unpacking python3-dev (3.9.8-1) ...
Selecting previously unselected package python3.10-dev.
Preparing to unpack .../155-python3.10-dev_3.10.2-1_armhf.deb ...
Unpacking python3.10-dev (3.10.2-1) ...
Selecting previously unselected package python3-all-dev.
Preparing to unpack .../156-python3-all-dev_3.9.8-1_armhf.deb ...
Unpacking python3-all-dev (3.9.8-1) ...
Selecting previously unselected package python3-pkg-resources.
Preparing to unpack .../157-python3-pkg-resources_59.6.0-1.2_all.deb ...
Unpacking python3-pkg-resources (59.6.0-1.2) ...
Selecting previously unselected package python3-setuptools.
Preparing to unpack .../158-python3-setuptools_59.6.0-1.2_all.deb ...
Unpacking python3-setuptools (59.6.0-1.2) ...
Selecting previously unselected package t1utils.
Preparing to unpack .../159-t1utils_1.41-4_armhf.deb ...
Unpacking t1utils (1.41-4) ...
Selecting previously unselected package texlive-binaries.
Preparing to unpack .../160-texlive-binaries_2021.20210626.59705-1_armhf.deb ...
Unpacking texlive-binaries (2021.20210626.59705-1) ...
Selecting previously unselected package xdg-utils.
Preparing to unpack .../161-xdg-utils_1.1.3-4.1_all.deb ...
Unpacking xdg-utils (1.1.3-4.1) ...
Selecting previously unselected package texlive-base.
Preparing to unpack .../162-texlive-base_2021.20220204-1_all.deb ...
Unpacking texlive-base (2021.20220204-1) ...
Selecting previously unselected package texlive-font-utils.
Preparing to unpack .../163-texlive-font-utils_2021.20220204-1_all.deb ...
Unpacking texlive-font-utils (2021.20220204-1) ...
Selecting previously unselected package texlive-fonts-recommended.
Preparing to unpack .../164-texlive-fonts-recommended_2021.20220204-1_all.deb ...
Unpacking texlive-fonts-recommended (2021.20220204-1) ...
Selecting previously unselected package texlive-lang-greek.
Preparing to unpack .../165-texlive-lang-greek_2021.20220204-1_all.deb ...
Unpacking texlive-lang-greek (2021.20220204-1) ...
Selecting previously unselected package texlive-latex-base.
Preparing to unpack .../166-texlive-latex-base_2021.20220204-1_all.deb ...
Unpacking texlive-latex-base (2021.20220204-1) ...
Selecting previously unselected package texlive-latex-recommended.
Preparing to unpack .../167-texlive-latex-recommended_2021.20220204-1_all.deb ...
Unpacking texlive-latex-recommended (2021.20220204-1) ...
Selecting previously unselected package texlive-pictures.
Preparing to unpack .../168-texlive-pictures_2021.20220204-1_all.deb ...
Unpacking texlive-pictures (2021.20220204-1) ...
Selecting previously unselected package texlive-latex-extra.
Preparing to unpack .../169-texlive-latex-extra_2021.20220204-1_all.deb ...
Unpacking texlive-latex-extra (2021.20220204-1) ...
Selecting previously unselected package texlive-science.
Preparing to unpack .../170-texlive-science_2021.20220204-1_all.deb ...
Unpacking texlive-science (2021.20220204-1) ...
Selecting previously unselected package sbuild-build-depends-minimap2-dummy.
Preparing to unpack .../171-sbuild-build-depends-minimap2-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-minimap2-dummy (0.invalid.0) ...
Setting up media-types (6.0.0) ...
Setting up libpipeline1:armhf (1.5.5-1) ...
Setting up libgraphite2-3:armhf (1.3.14-1) ...
Setting up libsimde-dev (0.7.2-6) ...
Setting up liblcms2-2:armhf (2.12~rc1-2) ...
Setting up libpixman-1-0:armhf (0.40.0-1) ...
Setting up libwayland-server0:armhf (1.20.0-1) ...
Setting up systemd-sysv (250.3-2+rpi1) ...
Setting up libxau6:armhf (1:1.0.9-1) ...
Setting up libdouble-conversion3:armhf (3.1.7-4) ...
Setting up bsdextrautils (2.37.3-1) ...
Setting up fonts-gfs-porson (1.1-7) ...
Setting up hicolor-icon-theme (0.17-2) ...
Setting up libicu67:armhf (67.1-7) ...
Setting up libdatrie1:armhf (0.2.13-2+b2) ...
Setting up libmagic-mgc (1:5.41-2) ...
Setting up libtexlua53:armhf (2021.20210626.59705-1) ...
Setting up libarchive-zip-perl (1.68-1) ...
Setting up libglib2.0-0:armhf (2.70.4-1) ...
Setting up libglvnd0:armhf (1.4.0-1) ...
Setting up libijs-0.35:armhf (0.35-15) ...
Setting up libtexluajit2:armhf (2021.20210626.59705-1) ...
Setting up libdebhelper-perl (13.6) ...
Setting up libbrotli1:armhf (1.0.9-2+b1) ...
Setting up libfontbox-java (1:1.8.16-2) ...
Setting up libgdk-pixbuf2.0-common (2.42.6+dfsg-2) ...
Setting up x11-common (1:7.7+23) ...
Running in chroot, ignoring request.
invoke-rc.d: policy-rc.d denied execution of restart.
Setting up libsensors-config (1:3.6.0-7) ...
Setting up libmagic1:armhf (1:5.41-2) ...
Setting up libdeflate0:armhf (1.10-2) ...
Setting up gettext-base (0.21-4) ...
Setting up xkb-data (2.33-1) ...
Setting up libzzip-0-13:armhf (0.13.72+dfsg.1-1.1) ...
Setting up file (1:5.41-2) ...
Setting up fonts-urw-base35 (20200910-1) ...
Setting up libjbig0:armhf (2.1-3.1+b2) ...
Setting up libpcre2-16-0:armhf (10.39-3) ...
Setting up libcolord2:armhf (1.4.6-1) ...
Setting up poppler-data (0.4.11-1) ...
Setting up libdconf1:armhf (0.40.0-3) ...
Setting up autotools-dev (20220109.1) ...
Setting up libz3-4:armhf (4.8.12-1) ...
Setting up libgles2:armhf (1.4.0-1) ...
Setting up libexpat1-dev:armhf (2.4.4-1) ...
Setting up libjpeg62-turbo:armhf (1:2.1.2-1) ...
Setting up libx11-data (2:1.7.2-2) ...
Setting up libepoxy0:armhf (1.5.9-2) ...
Setting up libjbig2dec0:armhf (0.19-3+b2) ...
Setting up libteckit0:armhf (2.5.11+ds1-1) ...
Setting up aglfn (1.7+git20191031.4036a9c-2) ...
Setting up libapache-pom-java (18-1) ...
Setting up libavahi-common-data:armhf (0.8-5) ...
Setting up libdbus-1-3:armhf (1.14.0-1) ...
Setting up libsigsegv2:armhf (2.14-1) ...
Setting up libfribidi0:armhf (1.0.8-2) ...
Setting up t1utils (1.41-4) ...
Setting up libpng16-16:armhf (1.6.37-3) ...
Setting up libidn12:armhf (1.38-4) ...
Setting up libpython3.10-minimal:armhf (3.10.2-1) ...
Setting up autopoint (0.21-4) ...
Setting up libwebp6:armhf (0.6.1-2.1) ...
Setting up fonts-dejavu-core (2.37-2) ...
Setting up d-shlibs (0.104) ...
Setting up ucf (3.0043) ...
Setting up libsensors5:armhf (1:3.6.0-7) ...
Setting up libglapi-mesa:armhf (21.3.7-1+rpi1) ...
Setting up libkpathsea6:armhf (2021.20210626.59705-1) ...
Setting up libmtdev1:armhf (1.1.6-1) ...
Setting up libvulkan1:armhf (1.3.204.0-1) ...
Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-2) ...
Setting up libatk1.0-data (2.36.0-3) ...
Setting up libmd0:armhf (1.0.4-1) ...
Setting up fonts-gfs-baskerville (1.1-6) ...
Setting up libxshmfence1:armhf (1.3-1) ...
Setting up dbus-session-bus-common (1.14.0-1) ...
Setting up libuchardet0:armhf (0.0.7-1) ...
Setting up libmpdec3:armhf (2.5.1-2+rpi1) ...
Setting up libmd4c0:armhf (0.4.8-1) ...
Setting up fonts-lmodern (2.004.5-6.1) ...
Setting up liblua5.4-0:armhf (5.4.4-1) ...
Setting up libopenjp2-7:armhf (2.4.0-6) ...
Setting up libsub-override-perl (0.09-2) ...
Setting up libthai-data (0.1.29-1) ...
Setting up libwxbase3.0-0v5:armhf (3.0.5.1+dfsg-3) ...
Setting up libatk1.0-0:armhf (2.36.0-3) ...
Setting up libtiff5:armhf (4.3.0-4) ...
Setting up libwayland-egl1:armhf (1.20.0-1) ...
Setting up libjs-jquery (3.6.0+dfsg+~3.5.13-1) ...
Setting up dbus-system-bus-common (1.14.0-1) ...
useradd warning: messagebus's uid 109 outside of the UID_MIN 1000 and UID_MAX 60000 range.
Setting up libbsd0:armhf (0.11.5-1) ...
Setting up libdrm-common (2.4.110-1+rpi1) ...
Setting up libelf1:armhf (0.186-1) ...
Setting up libevdev2:armhf (1.12.0+dfsg-1) ...
Setting up libxml2:armhf (2.9.13+dfsg-1) ...
Setting up xdg-utils (1.1.3-4.1) ...
update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode
Setting up dbus-bin (1.14.0-1) ...
Setting up libgudev-1.0-0:armhf (237-2) ...
Setting up libsynctex2:armhf (2021.20210626.59705-1) ...
Setting up libpython3.9-stdlib:armhf (3.9.10-2+rpi1) ...
Setting up libpython3-stdlib:armhf (3.9.8-1) ...
Setting up libjs-underscore (1.13.2~dfsg-2) ...
Setting up libwacom-common (2.1.0-2) ...
Setting up libxkbcommon0:armhf (1.4.0-1) ...
Setting up libwayland-client0:armhf (1.20.0-1) ...
Setting up libgs9-common (9.55.0~dfsg-3) ...
Setting up libfile-stripnondeterminism-perl (1.13.0-1) ...
Setting up gnuplot-data (5.4.2+dfsg2-2) ...
Setting up libpaper1:armhf (1.1.28) ...
Creating config file /etc/papersize with new version
Setting up libice6:armhf (2:1.0.10-1) ...
Setting up libxdmcp6:armhf (1:1.1.2-3) ...
Setting up libxcb1:armhf (1.14-3) ...
Setting up gettext (0.21-4) ...
Setting up libxcb-xfixes0:armhf (1.14-3) ...
Setting up libpdfbox-java (1:1.8.16-2) ...
Setting up libxcb-xinput0:armhf (1.14-3) ...
Setting up libtool (2.4.6-15) ...
Setting up libxcb-render0:armhf (1.14-3) ...
Setting up libwacom9:armhf (2.1.0-2) ...
Setting up fontconfig-config (2.13.1-4.4) ...
Setting up libxcb-glx0:armhf (1.14-3) ...
Setting up libedit2:armhf (3.1-20210910-1) ...
Setting up libcommons-parent-java (43-1) ...
Setting up libxcb-keysyms1:armhf (0.4.0-1+b2) ...
Setting up libxcb-shape0:armhf (1.14-3) ...
Setting up libavahi-common3:armhf (0.8-5) ...
Setting up libcommons-logging-java (1.2-2) ...
Setting up m4 (1.4.18-5) ...
Setting up libxcb-render-util0:armhf (0.3.9-1+b1) ...
Setting up libxcb-shm0:armhf (1.14-3) ...
Setting up libxcb-icccm4:armhf (0.4.1-1.1) ...
Setting up dbus-daemon (1.14.0-1) ...
Setting up libpaper-utils (1.1.28) ...
Setting up python3.10-minimal (3.10.2-1) ...
Setting up libxcb-util1:armhf (0.4.0-1) ...
Setting up libinput-bin (1.20.0-1) ...
Setting up libxcb-xkb1:armhf (1.14-3) ...
Setting up libxcb-image0:armhf (0.4.0-2) ...
Setting up intltool-debian (0.35.0+20060710.5) ...
Setting up libxcb-present0:armhf (1.14-3) ...
Setting up libpython3.10-stdlib:armhf (3.10.2-1) ...
Setting up tex-common (6.17) ...
update-language: texlive-base not installed and configured, doing nothing!
Setting up libthai0:armhf (0.1.29-1) ...
Setting up libxcb-xinerama0:armhf (1.14-3) ...
Setting up libpython3.9:armhf (3.9.10-2+rpi1) ...
Setting up libptexenc1:armhf (2021.20210626.59705-1) ...
Setting up libfreetype6:armhf (2.11.1+dfsg-1) ...
Setting up libxcb-sync1:armhf (1.14-3) ...
Setting up dbus (1.14.0-1) ...
Running in chroot, ignoring request.
invoke-rc.d: policy-rc.d denied execution of start.
Setting up shared-mime-info (2.1-2) ...
Setting up libxkbcommon-x11-0:armhf (1.4.0-1) ...
Setting up libllvm13:armhf (1:13.0.1-3+rpi1) ...
Setting up libqt5core5a:armhf (5.15.2+dfsg-15+rpi1) ...
Setting up libjs-sphinxdoc (4.3.2-1) ...
Setting up autoconf (2.71-2) ...
Setting up libxcb-dri2-0:armhf (1.14-3) ...
Setting up dh-strip-nondeterminism (1.13.0-1) ...
Setting up libdrm2:armhf (2.4.110-1+rpi1) ...
Setting up dwz (0.14-1) ...
Setting up groff-base (1.22.4-8) ...
Setting up libqt5dbus5:armhf (5.15.2+dfsg-15+rpi1) ...
Setting up libwayland-cursor0:armhf (1.20.0-1) ...
Setting up libxcb-randr0:armhf (1.14-3) ...
Setting up libpam-systemd:armhf (250.3-2+rpi1) ...
Setting up libx11-6:armhf (2:1.7.2-2) ...
Setting up libharfbuzz0b:armhf (2.7.4-1) ...
Setting up libgdk-pixbuf-2.0-0:armhf (2.42.6+dfsg-2) ...
Setting up libfontconfig1:armhf (2.13.1-4.4) ...
Setting up libxcomposite1:armhf (1:0.4.5-1) ...
Setting up libsm6:armhf (2:1.2.3-1) ...
Setting up libavahi-client3:armhf (0.8-5) ...
Setting up python3.9 (3.9.10-2+rpi1) ...
Setting up libdrm-amdgpu1:armhf (2.4.110-1+rpi1) ...
Setting up automake (1:1.16.5-1.1) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
Setting up libxcb-dri3-0:armhf (1.14-3) ...
Setting up libinput10:armhf (1.20.0-1) ...
Setting up gtk-update-icon-cache (3.24.33-1) ...
Setting up libx11-xcb1:armhf (2:1.7.2-2) ...
Setting up libpython3.10:armhf (3.10.2-1) ...
Setting up fontconfig (2.13.1-4.4) ...
Regenerating fonts cache... done.
Setting up libdrm-nouveau2:armhf (2.4.110-1+rpi1) ...
Setting up libxdamage1:armhf (1:1.1.5-2) ...
Setting up python3.10 (3.10.2-1) ...
Setting up libxpm4:armhf (1:3.5.12-1) ...
Setting up libxrender1:armhf (1:0.9.10-1) ...
Setting up libgbm1:armhf (21.3.7-1+rpi1) ...
Setting up libdrm-radeon1:armhf (2.4.110-1+rpi1) ...
Setting up po-debconf (1.0.21+nmu1) ...
Setting up preview-latex-style (12.2-1) ...
Setting up libpango-1.0-0:armhf (1.50.4+ds-1) ...
Setting up libgl1-mesa-dri:armhf (21.3.7-1+rpi1) ...
Setting up libxext6:armhf (2:1.3.4-1) ...
Setting up libpython3.9-dev:armhf (3.9.10-2+rpi1) ...
Setting up python3 (3.9.8-1) ...
Setting up man-db (2.10.1-1) ...
Not building database; man-db/auto-update is not 'true'.
Created symlink /etc/systemd/system/timers.target.wants/man-db.timer -> /lib/systemd/system/man-db.timer.
Setting up libcairo2:armhf (1.16.0-5) ...
Setting up libqt5network5:armhf (5.15.2+dfsg-15+rpi1) ...
Setting up libxxf86vm1:armhf (1:1.1.4-1+b2) ...
Setting up dh-autoreconf (20) ...
Setting up dbus-user-session (1.14.0-1) ...
Setting up libegl-mesa0:armhf (21.3.7-1+rpi1) ...
Setting up adwaita-icon-theme (42~really41.0-1) ...
update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode
Setting up libxfixes3:armhf (1:6.0.0-1) ...
Setting up libnotify4:armhf (0.7.9-3) ...
Setting up libxinerama1:armhf (2:1.1.4-3) ...
Setting up libgd3:armhf (2.3.0-2) ...
Setting up libxrandr2:armhf (2:1.5.2-1) ...
Setting up cython3 (0.29.28-1) ...
Setting up libpython3.10-dev:armhf (3.10.2-1) ...
Setting up libxt6:armhf (1:1.2.1-1) ...
Setting up libcups2:armhf (2.4.1op1-2) ...
Setting up python3.10-dev (3.10.2-1) ...
Setting up python3.9-dev (3.9.10-2+rpi1) ...
Setting up libegl1:armhf (1.4.0-1) ...
Setting up libcairo-gobject2:armhf (1.16.0-5) ...
Setting up libpangoft2-1.0-0:armhf (1.50.4+ds-1) ...
Setting up python3-lib2to3 (3.9.10-1) ...
Setting up libpangocairo-1.0-0:armhf (1.50.4+ds-1) ...
Setting up python3-pkg-resources (59.6.0-1.2) ...
Setting up python3-distutils (3.9.10-1) ...
Setting up dh-python (5.20220215) ...
Setting up libxmu6:armhf (2:1.1.3-3) ...
Setting up libglx-mesa0:armhf (21.3.7-1+rpi1) ...
Setting up libpython3-dev:armhf (3.9.8-1) ...
Setting up python3-setuptools (59.6.0-1.2) ...
Setting up libgs9:armhf (9.55.0~dfsg-3) ...
Setting up libxi6:armhf (2:1.8-1) ...
Setting up libglx0:armhf (1.4.0-1) ...
Setting up libxcursor1:armhf (1:1.2.0-2) ...
Setting up libqt5gui5:armhf (5.15.2+dfsg-15+rpi1) ...
Setting up python3-all (3.9.8-1) ...
Setting up debhelper (13.6) ...
Setting up libqt5widgets5:armhf (5.15.2+dfsg-15+rpi1) ...
Setting up dconf-service (0.40.0-3) ...
Setting up libxaw7:armhf (2:1.0.14-1) ...
Setting up libatspi2.0-0:armhf (2.42.0-2) ...
Setting up ghostscript (9.55.0~dfsg-3) ...
Setting up libqt5printsupport5:armhf (5.15.2+dfsg-15+rpi1) ...
Setting up libatk-bridge2.0-0:armhf (2.38.0-3) ...
Setting up libgl1:armhf (1.4.0-1) ...
Setting up libpython3-all-dev:armhf (3.9.8-1) ...
Setting up python3-dev (3.9.8-1) ...
Setting up texlive-binaries (2021.20210626.59705-1) ...
update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode
update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode
Setting up texlive-base (2021.20220204-1) ...
/usr/bin/ucfr
/usr/bin/ucfr
/usr/bin/ucfr
/usr/bin/ucfr
tl-paper: setting paper size for dvips to a4: /var/lib/texmf/dvips/config/config-paper.ps
tl-paper: setting paper size for dvipdfmx to a4: /var/lib/texmf/dvipdfmx/dvipdfmx-paper.cfg
tl-paper: setting paper size for xdvi to a4: /var/lib/texmf/xdvi/XDvi-paper
tl-paper: setting paper size for pdftex to a4: /var/lib/texmf/tex/generic/tex-ini-files/pdftexconfig.tex
Setting up python3-all-dev (3.9.8-1) ...
Setting up dconf-gsettings-backend:armhf (0.40.0-3) ...
Setting up libqt5svg5:armhf (5.15.2-4) ...
Setting up texlive-lang-greek (2021.20220204-1) ...
Setting up texlive-font-utils (2021.20220204-1) ...
Setting up texlive-latex-base (2021.20220204-1) ...
Setting up texlive-latex-recommended (2021.20220204-1) ...
Setting up texlive-pictures (2021.20220204-1) ...
Setting up texlive-fonts-recommended (2021.20220204-1) ...
Setting up libgtk-3-common (3.24.33-1) ...
Setting up libgtk-3-0:armhf (3.24.33-1) ...
Setting up texlive-science (2021.20220204-1) ...
Setting up texlive-latex-extra (2021.20220204-1) ...
Setting up libwxgtk3.0-gtk3-0v5:armhf (3.0.5.1+dfsg-3) ...
Setting up gnuplot-qt (5.4.2+dfsg2-2) ...
update-alternatives: using /usr/bin/gnuplot-qt to provide /usr/bin/gnuplot (gnuplot) in auto mode
Setting up gnuplot (5.4.2+dfsg2-2) ...
Setting up sbuild-build-depends-minimap2-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.33-5+rpi1) ...
Processing triggers for tex-common (6.17) ...
Running updmap-sys. This may take some time... done.
Running mktexlsr /var/lib/texmf ... done.
Building format(s) --all.
This may take some time... done.
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.15.0-163-generic armhf (armv8l)
Toolchain package versions: binutils_2.37.90.20220207-1+rpi1 dpkg-dev_1.21.1+rpi1 g++-11_11.2.0-16+rpi1 gcc-11_11.2.0-16+rpi1 libc6-dev_2.33-5+rpi1 libstdc++-11-dev_11.2.0-16+rpi1 libstdc++6_11.2.0-16+rpi1 linux-libc-dev_5.15.15-2+rpi1
Package versions: adduser_3.118 adwaita-icon-theme_42~really41.0-1 aglfn_1.7+git20191031.4036a9c-2 apt_2.3.15 autoconf_2.71-2 automake_1:1.16.5-1.1 autopoint_0.21-4 autotools-dev_20220109.1 base-files_12.2+rpi1 base-passwd_3.5.52 bash_5.1-6 binutils_2.37.90.20220207-1+rpi1 binutils-arm-linux-gnueabihf_2.37.90.20220207-1+rpi1 binutils-common_2.37.90.20220207-1+rpi1 bsdextrautils_2.37.3-1 bsdutils_1:2.37.3-1 build-essential_12.9 bzip2_1.0.8-5 coreutils_8.32-4.1 cpp_4:11.2.0-2+rpi1 cpp-11_11.2.0-16+rpi1 cython3_0.29.28-1 d-shlibs_0.104 dash_0.5.11+git20210903+057cd650a4ed-3 dbus_1.14.0-1 dbus-bin_1.14.0-1 dbus-daemon_1.14.0-1 dbus-session-bus-common_1.14.0-1 dbus-system-bus-common_1.14.0-1 dbus-user-session_1.14.0-1 dconf-gsettings-backend_0.40.0-3 dconf-service_0.40.0-3 debconf_1.5.79 debhelper_13.6 debianutils_4.11.2 dh-autoreconf_20 dh-python_5.20220215 dh-strip-nondeterminism_1.13.0-1 diffutils_1:3.7-5 dirmngr_2.2.27-3 dmsetup_2:1.02.175-2.1 dpkg_1.21.1+rpi1 dpkg-dev_1.21.1+rpi1 dwz_0.14-1 e2fsprogs_1.46.5-2 fakeroot_1.27-1 file_1:5.41-2 findutils_4.8.0-1 fontconfig_2.13.1-4.4 fontconfig-config_2.13.1-4.4 fonts-dejavu-core_2.37-2 fonts-gfs-baskerville_1.1-6 fonts-gfs-porson_1.1-7 fonts-lmodern_2.004.5-6.1 fonts-urw-base35_20200910-1 g++_4:11.2.0-2+rpi1 g++-11_11.2.0-16+rpi1 gcc_4:11.2.0-2+rpi1 gcc-11_11.2.0-16+rpi1 gcc-11-base_11.2.0-16+rpi1 gcc-7-base_7.5.0-6+rpi1+b2 gcc-8-base_8.4.0-7+rpi1 gcc-9-base_9.4.0-2+rpi1 gettext_0.21-4 gettext-base_0.21-4 ghostscript_9.55.0~dfsg-3 gnupg_2.2.27-3 gnupg-l10n_2.2.27-3 gnupg-utils_2.2.27-3 gnuplot_5.4.2+dfsg2-2 gnuplot-data_5.4.2+dfsg2-2 gnuplot-qt_5.4.2+dfsg2-2 gpg_2.2.27-3 gpg-agent_2.2.27-3 gpg-wks-client_2.2.27-3 gpg-wks-server_2.2.27-3 gpgconf_2.2.27-3 gpgsm_2.2.27-3 gpgv_2.2.27-3 grep_3.7-1 groff-base_1.22.4-8 gtk-update-icon-cache_3.24.33-1 gzip_1.10-4 hicolor-icon-theme_0.17-2 hostname_3.23 init-system-helpers_1.61 intltool-debian_0.35.0+20060710.5 libacl1_2.3.1-1 libapache-pom-java_18-1 libapparmor1_3.0.4-2 libapt-pkg6.0_2.3.15 libarchive-zip-perl_1.68-1 libargon2-1_0~20171227-0.3 libasan6_11.2.0-16+rpi1 libassuan0_2.5.5-1 libatk-bridge2.0-0_2.38.0-3 libatk1.0-0_2.36.0-3 libatk1.0-data_2.36.0-3 libatomic1_11.2.0-16+rpi1 libatspi2.0-0_2.42.0-2 libattr1_1:2.5.1-1 libaudit-common_1:3.0.7-1 libaudit1_1:3.0.7-1 libavahi-client3_0.8-5 libavahi-common-data_0.8-5 libavahi-common3_0.8-5 libbinutils_2.37.90.20220207-1+rpi1 libblkid1_2.37.3-1 libbrotli1_1.0.9-2+b1 libbsd0_0.11.5-1 libbz2-1.0_1.0.8-5 libc-bin_2.33-5+rpi1 libc-dev-bin_2.33-5+rpi1 libc6_2.33-5+rpi1 libc6-dev_2.33-5+rpi1 libcairo-gobject2_1.16.0-5 libcairo2_1.16.0-5 libcap-ng0_0.7.9-2.2+b1 libcap2_1:2.44-1 libcc1-0_11.2.0-16+rpi1 libcolord2_1.4.6-1 libcom-err2_1.46.5-2 libcommons-logging-java_1.2-2 libcommons-parent-java_43-1 libcrypt-dev_1:4.4.27-1.1 libcrypt1_1:4.4.27-1.1 libcryptsetup12_2:2.4.3-1 libctf-nobfd0_2.37.90.20220207-1+rpi1 libctf0_2.37.90.20220207-1+rpi1 libcups2_2.4.1op1-2 libdatrie1_0.2.13-2+b2 libdb5.3_5.3.28+dfsg1-0.8 libdbus-1-3_1.14.0-1 libdconf1_0.40.0-3 libdebconfclient0_0.261 libdebhelper-perl_13.6 libdeflate0_1.10-2 libdevmapper1.02.1_2:1.02.175-2.1 libdouble-conversion3_3.1.7-4 libdpkg-perl_1.21.1+rpi1 libdrm-amdgpu1_2.4.110-1+rpi1 libdrm-common_2.4.110-1+rpi1 libdrm-nouveau2_2.4.110-1+rpi1 libdrm-radeon1_2.4.110-1+rpi1 libdrm2_2.4.110-1+rpi1 libedit2_3.1-20210910-1 libegl-mesa0_21.3.7-1+rpi1 libegl1_1.4.0-1 libelf1_0.186-1 libepoxy0_1.5.9-2 libevdev2_1.12.0+dfsg-1 libexpat1_2.4.4-1 libexpat1-dev_2.4.4-1 libext2fs2_1.46.5-2 libfakeroot_1.27-1 libfdisk1_2.37.3-1 libffi8_3.4.2-4 libfile-stripnondeterminism-perl_1.13.0-1 libfontbox-java_1:1.8.16-2 libfontconfig1_2.13.1-4.4 libfreetype6_2.11.1+dfsg-1 libfribidi0_1.0.8-2 libgbm1_21.3.7-1+rpi1 libgcc-11-dev_11.2.0-16+rpi1 libgcc-s1_11.2.0-16+rpi1 libgcrypt20_1.9.4-5 libgd3_2.3.0-2 libgdbm-compat4_1.23-1 libgdbm6_1.23-1 libgdk-pixbuf-2.0-0_2.42.6+dfsg-2 libgdk-pixbuf2.0-common_2.42.6+dfsg-2 libgl1_1.4.0-1 libgl1-mesa-dri_21.3.7-1+rpi1 libglapi-mesa_21.3.7-1+rpi1 libgles2_1.4.0-1 libglib2.0-0_2.70.4-1 libglvnd0_1.4.0-1 libglx-mesa0_21.3.7-1+rpi1 libglx0_1.4.0-1 libgmp10_2:6.2.1+dfsg-3 libgnutls30_3.7.3-4 libgomp1_11.2.0-16+rpi1 libgpg-error0_1.43-3 libgraphite2-3_1.3.14-1 libgs9_9.55.0~dfsg-3 libgs9-common_9.55.0~dfsg-3 libgssapi-krb5-2_1.18.3-7 libgtk-3-0_3.24.33-1 libgtk-3-common_3.24.33-1 libgudev-1.0-0_237-2 libharfbuzz0b_2.7.4-1 libhogweed6_3.7.3-1 libice6_2:1.0.10-1 libicu67_67.1-7 libidn12_1.38-4 libidn2-0_2.3.2-2 libijs-0.35_0.35-15 libinput-bin_1.20.0-1 libinput10_1.20.0-1 libip4tc2_1.8.7-1 libisl23_0.24-2 libjbig0_2.1-3.1+b2 libjbig2dec0_0.19-3+b2 libjpeg62-turbo_1:2.1.2-1 libjs-jquery_3.6.0+dfsg+~3.5.13-1 libjs-sphinxdoc_4.3.2-1 libjs-underscore_1.13.2~dfsg-2 libjson-c5_0.15-2 libk5crypto3_1.18.3-7 libkeyutils1_1.6.1-2 libkmod2_29-1 libkpathsea6_2021.20210626.59705-1 libkrb5-3_1.18.3-7 libkrb5support0_1.18.3-7 libksba8_1.6.0-2 liblcms2-2_2.12~rc1-2 libldap-2.4-2_2.4.59+dfsg-1+b1 libllvm13_1:13.0.1-3+rpi1 liblua5.4-0_5.4.4-1 liblz4-1_1.9.3-2 liblzma5_5.2.5-2 libmagic-mgc_1:5.41-2 libmagic1_1:5.41-2 libmd0_1.0.4-1 libmd4c0_0.4.8-1 libmount1_2.37.3-1 libmpc3_1.2.1-1 libmpdec3_2.5.1-2+rpi1 libmpfr6_4.1.0-3 libmtdev1_1.1.6-1 libncursesw6_6.3-2 libnettle8_3.7.3-1 libnotify4_0.7.9-3 libnpth0_1.6-3 libnsl-dev_1.3.0-2 libnsl2_1.3.0-2 libopenjp2-7_2.4.0-6 libp11-kit0_0.24.0-6 libpam-modules_1.4.0-11 libpam-modules-bin_1.4.0-11 libpam-runtime_1.4.0-11 libpam-systemd_250.3-2+rpi1 libpam0g_1.4.0-11 libpango-1.0-0_1.50.4+ds-1 libpangocairo-1.0-0_1.50.4+ds-1 libpangoft2-1.0-0_1.50.4+ds-1 libpaper-utils_1.1.28 libpaper1_1.1.28 libpcre2-16-0_10.39-3 libpcre2-8-0_10.39-3 libpcre3_2:8.39-13 libpdfbox-java_1:1.8.16-2 libperl5.32_5.32.1-6 libperl5.34_5.34.0-3 libpipeline1_1.5.5-1 libpixman-1-0_0.40.0-1 libpng16-16_1.6.37-3 libptexenc1_2021.20210626.59705-1 libpython3-all-dev_3.9.8-1 libpython3-dev_3.9.8-1 libpython3-stdlib_3.9.8-1 libpython3.10_3.10.2-1 libpython3.10-dev_3.10.2-1 libpython3.10-minimal_3.10.2-1 libpython3.10-stdlib_3.10.2-1 libpython3.9_3.9.10-2+rpi1 libpython3.9-dev_3.9.10-2+rpi1 libpython3.9-minimal_3.9.10-2+rpi1 libpython3.9-stdlib_3.9.10-2+rpi1 libqt5core5a_5.15.2+dfsg-15+rpi1 libqt5dbus5_5.15.2+dfsg-15+rpi1 libqt5gui5_5.15.2+dfsg-15+rpi1 libqt5network5_5.15.2+dfsg-15+rpi1 libqt5printsupport5_5.15.2+dfsg-15+rpi1 libqt5svg5_5.15.2-4 libqt5widgets5_5.15.2+dfsg-15+rpi1 libreadline8_8.1.2-1 libsasl2-2_2.1.27+dfsg2-3 libsasl2-modules-db_2.1.27+dfsg2-3 libseccomp2_2.5.3-2+rpi1 libselinux1_3.3-1 libsemanage-common_3.3-1 libsemanage2_3.3-1 libsensors-config_1:3.6.0-7 libsensors5_1:3.6.0-7 libsepol1_3.1-1 libsepol2_3.3-1 libsigsegv2_2.14-1 libsimde-dev_0.7.2-6 libsm6_2:1.2.3-1 libsmartcols1_2.37.3-1 libsqlite3-0_3.37.2-2 libss2_1.46.5-2 libssl1.1_1.1.1m-1 libstdc++-11-dev_11.2.0-16+rpi1 libstdc++6_11.2.0-16+rpi1 libsub-override-perl_0.09-2 libsynctex2_2021.20210626.59705-1 libsystemd0_250.3-2+rpi1 libtasn1-6_4.18.0-4 libteckit0_2.5.11+ds1-1 libtexlua53_2021.20210626.59705-1 libtexluajit2_2021.20210626.59705-1 libthai-data_0.1.29-1 libthai0_0.1.29-1 libtiff5_4.3.0-4 libtinfo6_6.3-2 libtirpc-common_1.3.2-2 libtirpc-dev_1.3.2-2 libtirpc3_1.3.2-2 libtool_2.4.6-15 libubsan1_11.2.0-16+rpi1 libuchardet0_0.0.7-1 libudev1_250.3-2+rpi1 libunistring2_1.0-1 libuuid1_2.37.3-1 libvulkan1_1.3.204.0-1 libwacom-common_2.1.0-2 libwacom9_2.1.0-2 libwayland-client0_1.20.0-1 libwayland-cursor0_1.20.0-1 libwayland-egl1_1.20.0-1 libwayland-server0_1.20.0-1 libwebp6_0.6.1-2.1 libwxbase3.0-0v5_3.0.5.1+dfsg-3 libwxgtk3.0-gtk3-0v5_3.0.5.1+dfsg-3 libx11-6_2:1.7.2-2 libx11-data_2:1.7.2-2 libx11-xcb1_2:1.7.2-2 libxau6_1:1.0.9-1 libxaw7_2:1.0.14-1 libxcb-dri2-0_1.14-3 libxcb-dri3-0_1.14-3 libxcb-glx0_1.14-3 libxcb-icccm4_0.4.1-1.1 libxcb-image0_0.4.0-2 libxcb-keysyms1_0.4.0-1+b2 libxcb-present0_1.14-3 libxcb-randr0_1.14-3 libxcb-render-util0_0.3.9-1+b1 libxcb-render0_1.14-3 libxcb-shape0_1.14-3 libxcb-shm0_1.14-3 libxcb-sync1_1.14-3 libxcb-util1_0.4.0-1 libxcb-xfixes0_1.14-3 libxcb-xinerama0_1.14-3 libxcb-xinput0_1.14-3 libxcb-xkb1_1.14-3 libxcb1_1.14-3 libxcomposite1_1:0.4.5-1 libxcursor1_1:1.2.0-2 libxdamage1_1:1.1.5-2 libxdmcp6_1:1.1.2-3 libxext6_2:1.3.4-1 libxfixes3_1:6.0.0-1 libxi6_2:1.8-1 libxinerama1_2:1.1.4-3 libxkbcommon-x11-0_1.4.0-1 libxkbcommon0_1.4.0-1 libxml2_2.9.13+dfsg-1 libxmu6_2:1.1.3-3 libxpm4_1:3.5.12-1 libxrandr2_2:1.5.2-1 libxrender1_1:0.9.10-1 libxshmfence1_1.3-1 libxt6_1:1.2.1-1 libxxf86vm1_1:1.1.4-1+b2 libxxhash0_0.8.0-2+rpi1 libz3-4_4.8.12-1 libzstd1_1.4.8+dfsg-3+rpi1 libzzip-0-13_0.13.72+dfsg.1-1.1 linux-libc-dev_5.15.15-2+rpi1 login_1:4.11.1+dfsg1-1 logsave_1.46.5-2 lsb-base_11.1.0+rpi1 m4_1.4.18-5 make_4.3-4.1 man-db_2.10.1-1 mawk_1.3.4.20200120-3 media-types_6.0.0 mount_2.37.3-1 ncurses-base_6.3-2 ncurses-bin_6.3-2 netbase_6.3 passwd_1:4.11.1+dfsg1-1 patch_2.7.6-7 perl_5.34.0-3 perl-base_5.34.0-3 perl-modules-5.32_5.32.1-6 perl-modules-5.34_5.34.0-3 pinentry-curses_1.1.0-4 po-debconf_1.0.21+nmu1 poppler-data_0.4.11-1 preview-latex-style_12.2-1 python3_3.9.8-1 python3-all_3.9.8-1 python3-all-dev_3.9.8-1 python3-dev_3.9.8-1 python3-distutils_3.9.10-1 python3-lib2to3_3.9.10-1 python3-minimal_3.9.8-1 python3-pkg-resources_59.6.0-1.2 python3-setuptools_59.6.0-1.2 python3.10_3.10.2-1 python3.10-dev_3.10.2-1 python3.10-minimal_3.10.2-1 python3.9_3.9.10-2+rpi1 python3.9-dev_3.9.10-2+rpi1 python3.9-minimal_3.9.10-2+rpi1 raspbian-archive-keyring_20120528.2 readline-common_8.1.2-1 rpcsvc-proto_1.4.2-4 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-minimap2-dummy_0.invalid.0 sed_4.8-1 sensible-utils_0.0.17 shared-mime-info_2.1-2 systemd_250.3-2+rpi1 systemd-sysv_250.3-2+rpi1 sysvinit-utils_3.01-1 t1utils_1.41-4 tar_1.34+dfsg-1 tex-common_6.17 texlive-base_2021.20220204-1 texlive-binaries_2021.20210626.59705-1 texlive-font-utils_2021.20220204-1 texlive-fonts-recommended_2021.20220204-1 texlive-lang-greek_2021.20220204-1 texlive-latex-base_2021.20220204-1 texlive-latex-extra_2021.20220204-1 texlive-latex-recommended_2021.20220204-1 texlive-pictures_2021.20220204-1 texlive-science_2021.20220204-1 tzdata_2021e-1 ucf_3.0043 util-linux_2.37.3-1 x11-common_1:7.7+23 xdg-utils_1.1.3-4.1 xkb-data_2.33-1 xz-utils_5.2.5-2 zlib1g_1:1.2.11.dfsg-2 zlib1g-dev_1:1.2.11.dfsg-2
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/tmp/dpkg-verify-sig.BrYkBO2w/trustedkeys.kbx': General error
gpgv: Signature made Sat Mar 12 09:41:33 2022 UTC
gpgv: using RSA key 3E99A526F5DCC0CBBF1CEEA600BAE74B343369F1
gpgv: issuer "nilesh@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: cannot verify signature ./minimap2_2.24+dfsg-2.dsc
dpkg-source: info: extracting minimap2 in /<<BUILDDIR>>/minimap2-2.24+dfsg
dpkg-source: info: unpacking minimap2_2.24+dfsg.orig.tar.xz
dpkg-source: info: unpacking minimap2_2.24+dfsg-2.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying hardening.patch
dpkg-source: info: applying do_not_use_natbib.bst.patch
dpkg-source: info: applying ar.patch
dpkg-source: info: applying link_mappy_to_libminimap.patch
dpkg-source: info: applying python-sse4-arch.patch
dpkg-source: info: applying simde
dpkg-source: info: applying reenable-simde.patch
Check disk space
----------------
Sufficient free space for build
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=bookworm-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bookworm-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=112
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bookworm-staging-armhf-sbuild-5b6cd59d-44cd-4c8d-84f1-133f11daab93
SCHROOT_UID=107
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package minimap2
dpkg-buildpackage: info: source version 2.24+dfsg-2
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
debian/rules clean
dh clean --with python3
debian/rules override_dh_auto_clean
make[1]: Entering directory '/<<BUILDDIR>>/minimap2-2.24+dfsg'
dh_auto_clean
make -j4 clean
make[2]: Entering directory '/<<BUILDDIR>>/minimap2-2.24+dfsg'
rm -fr gmon.out *.o a.out minimap2 sdust minimap2-lite *~ *.a *.dSYM build dist mappy*.so mappy.c python/mappy.c mappy.egg*
make[2]: Leaving directory '/<<BUILDDIR>>/minimap2-2.24+dfsg'
cd tex && make clean
make[2]: Entering directory '/<<BUILDDIR>>/minimap2-2.24+dfsg/tex'
rm -fr *.toc *.aux *.bbl *.blg *.idx *.log *.out *~ minimap2.pdf
make[2]: Leaving directory '/<<BUILDDIR>>/minimap2-2.24+dfsg/tex'
rm -f MT-human.mmi
rm -f tex/minimap2.aux tex/minimap2.bbl tex/minimap2.blg tex/minimap2.log tex/minimap2.out tex/minimap2.pdf
rm -f libminimap2.a
make[1]: Leaving directory '/<<BUILDDIR>>/minimap2-2.24+dfsg'
dh_clean
debian/rules binary-arch
dh binary-arch --with python3
dh_update_autotools_config -a
dh_autoreconf -a
dh_auto_configure -a
debian/rules override_dh_auto_build
make[1]: Entering directory '/<<BUILDDIR>>/minimap2-2.24+dfsg'
dh_auto_build -- -f Makefile.simde
make -j4 "INSTALL=install --strip-program=true" -f Makefile.simde
make[2]: Entering directory '/<<BUILDDIR>>/minimap2-2.24+dfsg'
cc -c -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wdate-time -D_FORTIFY_SOURCE=2 main.c -o main.o
cc -c -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wdate-time -D_FORTIFY_SOURCE=2 kthread.c -o kthread.o
cc -c -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wdate-time -D_FORTIFY_SOURCE=2 kalloc.c -o kalloc.o
cc -c -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wdate-time -D_FORTIFY_SOURCE=2 misc.c -o misc.o
cc -c -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wdate-time -D_FORTIFY_SOURCE=2 bseq.c -o bseq.o
cc -c -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wdate-time -D_FORTIFY_SOURCE=2 sketch.c -o sketch.o
cc -c -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wdate-time -D_FORTIFY_SOURCE=2 sdust.c -o sdust.o
cc -c -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wdate-time -D_FORTIFY_SOURCE=2 options.c -o options.o
cc -c -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wdate-time -D_FORTIFY_SOURCE=2 index.c -o index.o
cc -c -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wdate-time -D_FORTIFY_SOURCE=2 lchain.c -o lchain.o
cc -c -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wdate-time -D_FORTIFY_SOURCE=2 align.c -o align.o
cc -c -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wdate-time -D_FORTIFY_SOURCE=2 hit.c -o hit.o
index.c: In function 'mm_idx_load':
index.c:519:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result]
519 | fread(&l, 1, 1, fp);
| ^~~~~~~~~~~~~~~~~~~
index.c:522:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result]
522 | fread(s->name, 1, l, fp);
| ^~~~~~~~~~~~~~~~~~~~~~~~
index.c:525:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result]
525 | fread(&s->len, 4, 1, fp);
| ^~~~~~~~~~~~~~~~~~~~~~~~
index.c:535:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result]
535 | fread(&b->n, 4, 1, fp);
| ^~~~~~~~~~~~~~~~~~~~~~
index.c:537:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result]
537 | fread(b->p, 8, b->n, fp);
| ^~~~~~~~~~~~~~~~~~~~~~~~
index.c:538:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result]
538 | fread(&size, 4, 1, fp);
| ^~~~~~~~~~~~~~~~~~~~~~
index.c:545:25: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result]
545 | fread(x, 8, 2, fp);
| ^~~~~~~~~~~~~~~~~~
index.c:553:17: warning: ignoring return value of 'fread' declared with attribute 'warn_unused_result' [-Wunused-result]
553 | fread(mi->S, 4, (sum_len + 7) / 8, fp);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
hit.c: In function 'mm_gen_regs':
hit.c:74:25: warning: argument 1 range [2147483648, 4294967295] exceeds maximum object size 2147483647 [-Walloc-size-larger-than=]
74 | r = (mm_reg1_t*)calloc(n_u, sizeof(mm_reg1_t));
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from hit.c:2:
/usr/include/stdlib.h:542:14: note: in a call to allocation function 'calloc' declared here
542 | extern void *calloc (size_t __nmemb, size_t __size)
| ^~~~~~
cc -c -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wdate-time -D_FORTIFY_SOURCE=2 seed.c -o seed.o
cc -c -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wdate-time -D_FORTIFY_SOURCE=2 map.c -o map.o
cc -c -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wdate-time -D_FORTIFY_SOURCE=2 format.c -o format.o
map.c: In function 'mm_map_frag':
map.c:370:60: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=]
370 | fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest);
| ~~^ ~~~~~~~~~~~~~
| | |
| long int size_t {aka unsigned int}
| %d
map.c:370:70: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'size_t' {aka 'unsigned int'} [-Wformat=]
370 | fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest);
| ~~^ ~~~~~~~~~~~~
| | |
| long int size_t {aka unsigned int}
| %d
map.c:370:82: warning: format '%ld' expects argument of type 'long int', but argument 7 has type 'size_t' {aka 'unsigned int'} [-Wformat=]
370 | fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest);
| ~~^ ~~~~~~~~~~~~
| | |
| long int size_t {aka unsigned int}
| %d
cc -c -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wdate-time -D_FORTIFY_SOURCE=2 pe.c -o pe.o
cc -c -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wdate-time -D_FORTIFY_SOURCE=2 esterr.c -o esterr.o
cc -c -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wdate-time -D_FORTIFY_SOURCE=2 splitidx.c -o splitidx.o
cc -c -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wdate-time -D_FORTIFY_SOURCE=2 ksw2_ll_sse.c -o ksw2_ll_sse.o
cc -c -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wdate-time -D_FORTIFY_SOURCE=2 -DKSW_SSE2_ONLY -D__SSE2__ ksw2_extz2_sse.c -o ksw2_extz2.o
ksw2_extz2_sse.c:5: warning: "SIMDE_ENABLE_NATIVE_ALIASES" redefined
5 | #define SIMDE_ENABLE_NATIVE_ALIASES
|
<command-line>: note: this is the location of the previous definition
cc -c -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wdate-time -D_FORTIFY_SOURCE=2 -DKSW_SSE2_ONLY -D__SSE2__ ksw2_extd2_sse.c -o ksw2_extd2.o
ksw2_extd2_sse.c:6: warning: "SIMDE_ENABLE_NATIVE_ALIASES" redefined
6 | #define SIMDE_ENABLE_NATIVE_ALIASES
|
<command-line>: note: this is the location of the previous definition
cc -c -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -Wdate-time -D_FORTIFY_SOURCE=2 -DKSW_SSE2_ONLY -D__SSE2__ ksw2_exts2_sse.c -o ksw2_exts2.o
ksw2_exts2_sse.c:6: warning: "SIMDE_ENABLE_NATIVE_ALIASES" redefined
6 | #define SIMDE_ENABLE_NATIVE_ALIASES
|
<command-line>: note: this is the location of the previous definition
rm -f libminimap2.a
ar csrD libminimap2.a kthread.o kalloc.o misc.o bseq.o sketch.o sdust.o options.o index.o lchain.o align.o hit.o seed.o map.o format.o pe.o esterr.o splitidx.o ksw2_ll_sse.o ksw2_extz2.o ksw2_extd2.o ksw2_exts2.o
cc -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -g -Wall -O2 -Wc++-compat -DHAVE_KALLOC -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES main.o -o minimap2 -L. -lminimap2 -lm -lz -lpthread -Wl,-z,relro -Wl,-z,now
make[2]: Leaving directory '/<<BUILDDIR>>/minimap2-2.24+dfsg'
cd tex && make
make[2]: Entering directory '/<<BUILDDIR>>/minimap2-2.24+dfsg/tex'
gnuplot roc.gp
epstopdf --outfile roc-color.pdf roc-color.eps
pdflatex minimap2; bibtex minimap2; pdflatex minimap2; pdflatex minimap2;
This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdflatex)
restricted \write18 enabled.
entering extended mode
(./minimap2.tex
LaTeX2e <2021-11-15> patch level 1
L3 programming layer <2022-01-21> (./bioinfo.cls
Document Class: bioinfo 2003/02/08 0.1
(/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty)
(/usr/share/texlive/texmf-dist/tex/latex/crop/crop.sty
(/usr/share/texlive/texmf-dist/tex/generic/iftex/ifluatex.sty
(/usr/share/texlive/texmf-dist/tex/generic/iftex/iftex.sty))
(/usr/share/texlive/texmf-dist/tex/latex/graphics/color.sty
(/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/color.cfg)
(/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def))
(/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty
(/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty)
(/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/graphics.cfg)))
(/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty
(/usr/share/texlive/texmf-dist/tex/latex/graphics/keyval.sty))
(/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsmath.sty
For additional information on amsmath, use the `?' option.
(/usr/share/texlive/texmf-dist/tex/latex/amsmath/amstext.sty
(/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsgen.sty))
(/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsbsy.sty)
(/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsopn.sty))
(/usr/share/texlive/texmf-dist/tex/latex/tools/array.sty)
(/usr/share/texlive/texmf-dist/tex/latex/amsfonts/amssymb.sty
(/usr/share/texlive/texmf-dist/tex/latex/amsfonts/amsfonts.sty))
(/usr/share/texlive/texmf-dist/tex/latex/sttools/flushend.sty)
(/usr/share/texlive/texmf-dist/tex/latex/sttools/stfloats.sty)
(/usr/share/texlive/texmf-dist/tex/latex/amscls/amsthm.sty)
(/usr/share/texlive/texmf-dist/tex/latex/changepage/chngpage.sty)
(/usr/share/texlive/texmf-dist/tex/latex/psnfss/times.sty))
(/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty
(/usr/share/texlive/texmf-dist/tex/generic/ltxcmds/ltxcmds.sty)
(/usr/share/texlive/texmf-dist/tex/generic/pdftexcmds/pdftexcmds.sty
(/usr/share/texlive/texmf-dist/tex/generic/infwarerr/infwarerr.sty))
(/usr/share/texlive/texmf-dist/tex/generic/kvsetkeys/kvsetkeys.sty)
(/usr/share/texlive/texmf-dist/tex/generic/kvdefinekeys/kvdefinekeys.sty)
(/usr/share/texlive/texmf-dist/tex/generic/pdfescape/pdfescape.sty)
(/usr/share/texlive/texmf-dist/tex/latex/hycolor/hycolor.sty)
(/usr/share/texlive/texmf-dist/tex/latex/letltxmacro/letltxmacro.sty)
(/usr/share/texlive/texmf-dist/tex/latex/auxhook/auxhook.sty)
(/usr/share/texlive/texmf-dist/tex/latex/kvoptions/kvoptions.sty)
(/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def)
(/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref-langpatches.def)
(/usr/share/texlive/texmf-dist/tex/generic/intcalc/intcalc.sty)
(/usr/share/texlive/texmf-dist/tex/generic/etexcmds/etexcmds.sty)
(/usr/share/texlive/texmf-dist/tex/latex/hyperref/puenc.def)
(/usr/share/texlive/texmf-dist/tex/latex/url/url.sty)
(/usr/share/texlive/texmf-dist/tex/generic/bitset/bitset.sty
(/usr/share/texlive/texmf-dist/tex/generic/bigintcalc/bigintcalc.sty))
(/usr/share/texlive/texmf-dist/tex/latex/base/atbegshi-ltx.sty))
(/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def
(/usr/share/texlive/texmf-dist/tex/latex/base/atveryend-ltx.sty)
(/usr/share/texlive/texmf-dist/tex/latex/rerunfilecheck/rerunfilecheck.sty
(/usr/share/texlive/texmf-dist/tex/generic/uniquecounter/uniquecounter.sty)))
(/usr/share/texlive/texmf-dist/tex/latex/algorithm2e/algorithm2e.sty
(/usr/share/texlive/texmf-dist/tex/latex/base/ifthen.sty)
(/usr/share/texlive/texmf-dist/tex/latex/ifoddpage/ifoddpage.sty)
(/usr/share/texlive/texmf-dist/tex/latex/tools/xspace.sty)
(/usr/share/texlive/texmf-dist/tex/latex/relsize/relsize.sty)) (./natbib.sty)
(/usr/share/texlive/texmf-dist/tex/latex/psnfss/ot1ptm.fd)
(/usr/share/texlive/texmf-dist/tex/latex/l3backend/l3backend-pdftex.def)
No file minimap2.aux.
(/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii
[Loading MPS to PDF converter (version 2006.09.02).]
) (/usr/share/texlive/texmf-dist/tex/latex/epstopdf-pkg/epstopdf-base.sty
(/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg))
(/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty
(/usr/share/texlive/texmf-dist/tex/latex/refcount/refcount.sty)
(/usr/share/texlive/texmf-dist/tex/generic/gettitlestring/gettitlestring.sty))
(/usr/share/texlive/texmf-dist/tex/latex/psnfss/ot1phv.fd)
Underfull \hbox (badness 10000) detected at line 27
[]
(/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsa.fd)
(/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsb.fd)
Underfull \hbox (badness 1014) in paragraph at lines 36--47
\OT1/phv/b/n/8 Results: \OT1/phv/m/n/8 Minimap2 is a general-purpose alignment
program to
LaTeX Font Warning: Font shape `OT1/cmr/m/n' in size <6.5> not available
(Font) size <6> substituted on input line 58.
LaTeX Font Warning: Font shape `OML/cmm/m/it' in size <6.5> not available
(Font) size <6> substituted on input line 58.
LaTeX Font Warning: Font shape `OMS/cmsy/m/n' in size <6.5> not available
(Font) size <6> substituted on input line 58.
Package natbib Warning: Citation `Chaisson:2012aa' on page 1 undefined on input
line 59.
Package natbib Warning: Citation `Li:2013aa' on page 1 undefined on input line
59.
Package natbib Warning: Citation `Liu:2016ab' on page 1 undefined on input line
59.
Package natbib Warning: Citation `Sovic:2016aa' on page 1 undefined on input li
ne 59.
Package natbib Warning: Citation `Liu:2017aa' on page 1 undefined on input line
59.
Package natbib Warning: Citation `Lin:2017aa' on page 1 undefined on input line
59.
Package natbib Warning: Citation `Sedlazeck169557' on page 1 undefined on input
line 59.
Package natbib Warning: Citation `Langmead:2012fk' on page 1 undefined on input
line 61.
Package natbib Warning: Citation `Li:2013aa' on page 1 undefined on input line
61.
Package natbib Warning: Citation `Li:2016aa' on page 1 undefined on input line
66.
Package natbib Warning: Citation `Suzuki:2018aa' on page 1 undefined on input l
ine 67.
Package natbib Warning: Citation `Wu:2005vn' on page 1 undefined on input line
72.
Package natbib Warning: Citation `Iwata:2012aa' on page 1 undefined on input li
ne 72.
Package natbib Warning: Citation `Roberts:2004fv' on page 1 undefined on input
line 90.
Package natbib Warning: Citation `Li:2016aa' on page 1 undefined on input line
101.
LaTeX Warning: Reference `eq:chain' on page 1 undefined on input line 131.
Package natbib Warning: Citation `Abouelhoda:2005aa' on page 1 undefined on inp
ut line 132.
LaTeX Warning: Reference `eq:chain' on page 1 undefined on input line 138.
Package natbib Warning: Citation `Li:2010fk' on page 1 undefined on input line
155.
[1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}]
LaTeX Warning: Reference `sec:long-genomic' on page 2 undefined on input line 2
01.
Package hyperref Warning: Token not allowed in a PDF string (Unicode):
(hyperref) removing `math shift' on input line 204.
Package hyperref Warning: Token not allowed in a PDF string (Unicode):
(hyperref) removing `math shift' on input line 204.
Package natbib Warning: Citation `Berlin:2015xy' on page 2 undefined on input l
ine 217.
Package natbib Warning: Citation `Gotoh:1990aa' on page 2 undefined on input li
ne 229.
LaTeX Warning: Reference `eq:ae86' on page 2 undefined on input line 250.
Package natbib Warning: Citation `Gotoh:1982aa' on page 2 undefined on input li
ne 251.
Package natbib Warning: Citation `Altschul:1986aa' on page 2 undefined on input
line 251.
Package natbib Warning: Citation `Farrar:2007hs' on page 2 undefined on input l
ine 257.
LaTeX Warning: Reference `eq:ae86' on page 2 undefined on input line 258.
Package natbib Warning: Citation `Wu:1996aa' on page 2 undefined on input line
261.
Package natbib Warning: Citation `Suzuki:2018aa' on page 2 undefined on input l
ine 261.
LaTeX Warning: Reference `eq:ae86' on page 2 undefined on input line 271.
LaTeX Warning: Reference `eq:suzuki' on page 2 undefined on input line 286.
LaTeX Warning: Reference `eq:suzuki' on page 2 undefined on input line 305.
LaTeX Warning: Reference `eq:suzuki' on page 2 undefined on input line 313.
Package natbib Warning: Citation `Farrar:2007hs' on page 2 undefined on input l
ine 329.
Overfull \hbox (261.0pt too wide) has occurred while \output is active
[][]
Overfull \vbox (1.0pt too high) has occurred while \output is active
Overfull \hbox (261.0pt too wide) has occurred while \output is active
[][]
[2]
LaTeX Warning: Reference `eq:ae86' on page 3 undefined on input line 349.
LaTeX Warning: Reference `eq:suzuki' on page 3 undefined on input line 356.
Package natbib Warning: Citation `Daily:2016aa' on page 3 undefined on input li
ne 359.
Package natbib Warning: Citation `Sosic:2017aa' on page 3 undefined on input li
ne 360.
Package natbib Warning: Citation `Altschul:1997vn' on page 3 undefined on input
line 379.
Underfull \hbox (badness 1769) in paragraph at lines 382--386
\OT1/ptm/m/n/8 performs local alignment between the two subsequences involved i
n
LaTeX Warning: Reference `eq:chain-gap' on page 3 undefined on input line 401.
Package natbib Warning: Citation `Irimia:2008aa' on page 3 undefined on input l
ine 436.
LaTeX Warning: Reference `eq:splice' on page 3 undefined on input line 442.
Package natbib Warning: Citation `Zhang:2006aa' on page 3 undefined on input li
ne 443.
LaTeX Warning: Reference `sec:primary' on page 3 undefined on input line 472.
LaTeX Warning: Reference `sec:genomic' on page 3 undefined on input line 474.
Overfull \hbox (261.0pt too wide) has occurred while \output is active
[][]
Overfull \vbox (1.0pt too high) has occurred while \output is active [3]
LaTeX Font Warning: Font shape `OT1/cmtt/m/n' in size <6.5> not available
(Font) size <6> substituted on input line 492.
Overfull \hbox (9.0pt too wide) in paragraph at lines 496--515
[][]
Package natbib Warning: Citation `Ono:2013aa' on page 4 undefined on input line
515.
Package natbib Warning: Citation `Holtgrewe:2010aa' on page 4 undefined on inpu
t line 515.
Package natbib Warning: Citation `Chaisson:2012aa' on page 4 undefined on input
line 519.
Package natbib Warning: Citation `Li:2013aa' on page 4 undefined on input line
520.
Package natbib Warning: Citation `Sovic:2016aa' on page 4 undefined on input li
ne 521.
Package natbib Warning: Citation `Lin:2017aa' on page 4 undefined on input line
522.
Package natbib Warning: Citation `Sedlazeck169557' on page 4 undefined on input
line 524.
Package natbib Warning: Citation `Liu:2016ab' on page 4 undefined on input line
524.
Package natbib Warning: Citation `Liu:2017aa' on page 4 undefined on input line
525.
LaTeX Warning: Reference `fig:eval' on page 4 undefined on input line 528.
Package natbib Warning: Citation `Jain128835' on page 4 undefined on input line
539.
Package natbib Warning: Citation `Robinson:2011aa' on page 4 undefined on input
line 541.
Package natbib Warning: Citation `Sedlazeck169557' on page 4 undefined on input
line 542.
Package natbib Warning: Citation `Byrne:2017aa' on page 4 undefined on input li
ne 549.
Package natbib Warning: Citation `Irimia:2008aa' on page 4 undefined on input l
ine 558.
Package natbib Warning: Citation `Li:2009ys' on page 4 undefined on input line
587.
Package natbib Warning: Citation `Byrne:2017aa' on page 4 undefined on input li
ne 590.
Package natbib Warning: Citation `Wu:2005vn' on page 4 undefined on input line
591.
Package natbib Warning: Citation `Iwata:2012aa' on page 4 undefined on input li
ne 591.
Package natbib Warning: Citation `Dobin:2013kx' on page 4 undefined on input li
ne 592.
LaTeX Warning: Reference `tab:intron' on page 4 undefined on input line 593.
LaTeX Warning: Reference `tab:intron' on page 4 undefined on input line 609.
Underfull \hbox (badness 4634) in paragraph at lines 598--610
\OT1/ptm/m/n/9 Direct RNA-seq dataset ([]http://bit.ly/na12878ont[]). Minimap2
Overfull \hbox (261.0pt too wide) has occurred while \output is active
[][]
Overfull \vbox (1.0pt too high) has occurred while \output is active
Overfull \hbox (261.0pt too wide) has occurred while \output is active
[][]
[4 <./roc-color.pdf>]
Package natbib Warning: Citation `Langmead:2012fk' on page 5 undefined on input
line 637.
Package natbib Warning: Citation `Zaharia:2011aa' on page 5 undefined on input
line 638.
LaTeX Warning: Reference `fig:eval' on page 5 undefined on input line 641.
Package natbib Warning: Citation `Depristo:2011vn' on page 5 undefined on input
line 649.
Package natbib Warning: Citation `Li223297' on page 5 undefined on input line 6
53.
Package natbib Warning: Citation `Marcais:2018aa' on page 5 undefined on input
line 664.
LaTeX Warning: Reference `fig:eval' on page 5 undefined on input line 694.
Underfull \hbox (badness 2027) in paragraph at lines 687--700
[]\OT1/ptm/m/n/9 The capability of minimap2 comes from a fast base-level
Underfull \hbox (badness 1226) in paragraph at lines 714--719
\OT1/ptm/m/n/9 releasing their masterpiece and insightful notes before formal
Package hyperref Warning: Difference (3) between bookmark levels is greater
(hyperref) than one, level fixed on input line 720.
No file minimap2.bbl.
Overfull \hbox (261.0pt too wide) has occurred while \output is active
[][]
[5]
Package natbib Warning: There were undefined citations.
(./minimap2.aux)
LaTeX Font Warning: Size substitutions with differences
(Font) up to 0.5pt have occurred.
LaTeX Warning: There were undefined references.
LaTeX Warning: Label(s) may have changed. Rerun to get cross-references right.
Package rerunfilecheck Warning: File `minimap2.out' has changed.
(rerunfilecheck) Rerun to get outlines right
(rerunfilecheck) or use package `bookmark'.
)
(see the transcript file for additional information){/usr/share/texlive/texmf-d
ist/fonts/enc/dvips/base/8r.enc}</usr/share/texlive/texmf-dist/fonts/type1/publ
ic/amsfonts/cmextra/cmex8.pfb></usr/share/texlive/texmf-dist/fonts/type1/public
/amsfonts/cm/cmmi6.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfon
ts/cm/cmmi8.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/c
mmi9.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmr6.pfb
></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmr8.pfb></usr/s
hare/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmr9.pfb></usr/share/tex
live/texmf-dist/fonts/type1/public/amsfonts/cm/cmsy6.pfb></usr/share/texlive/te
xmf-dist/fonts/type1/public/amsfonts/cm/cmsy8.pfb></usr/share/texlive/texmf-dis
t/fonts/type1/public/amsfonts/cm/cmsy9.pfb></usr/share/texlive/texmf-dist/fonts
/type1/public/amsfonts/cm/cmtt8.pfb></usr/share/texlive/texmf-dist/fonts/type1/
public/amsfonts/cm/cmtt9.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/
amsfonts/symbols/msam10.pfb></usr/share/texlive/texmf-dist/fonts/type1/urw/helv
etic/uhvb8a.pfb></usr/share/texlive/texmf-dist/fonts/type1/urw/helvetic/uhvbo8a
.pfb></usr/share/texlive/texmf-dist/fonts/type1/urw/helvetic/uhvr8a.pfb></usr/s
hare/texlive/texmf-dist/fonts/type1/urw/times/utmb8a.pfb></usr/share/texlive/te
xmf-dist/fonts/type1/urw/times/utmr8a.pfb></usr/share/texlive/texmf-dist/fonts/
type1/urw/times/utmri8a.pfb>
Output written on minimap2.pdf (5 pages, 254072 bytes).
Transcript written on minimap2.log.
This is BibTeX, Version 0.99d (TeX Live 2022/dev/Debian)
The top-level auxiliary file: minimap2.aux
The style file: apalike.bst
Database file #1: minimap2.bib
This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdflatex)
restricted \write18 enabled.
entering extended mode
(./minimap2.tex
LaTeX2e <2021-11-15> patch level 1
L3 programming layer <2022-01-21> (./bioinfo.cls
Document Class: bioinfo 2003/02/08 0.1
(/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty)
(/usr/share/texlive/texmf-dist/tex/latex/crop/crop.sty
(/usr/share/texlive/texmf-dist/tex/generic/iftex/ifluatex.sty
(/usr/share/texlive/texmf-dist/tex/generic/iftex/iftex.sty))
(/usr/share/texlive/texmf-dist/tex/latex/graphics/color.sty
(/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/color.cfg)
(/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def))
(/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty
(/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty)
(/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/graphics.cfg)))
(/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty
(/usr/share/texlive/texmf-dist/tex/latex/graphics/keyval.sty))
(/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsmath.sty
For additional information on amsmath, use the `?' option.
(/usr/share/texlive/texmf-dist/tex/latex/amsmath/amstext.sty
(/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsgen.sty))
(/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsbsy.sty)
(/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsopn.sty))
(/usr/share/texlive/texmf-dist/tex/latex/tools/array.sty)
(/usr/share/texlive/texmf-dist/tex/latex/amsfonts/amssymb.sty
(/usr/share/texlive/texmf-dist/tex/latex/amsfonts/amsfonts.sty))
(/usr/share/texlive/texmf-dist/tex/latex/sttools/flushend.sty)
(/usr/share/texlive/texmf-dist/tex/latex/sttools/stfloats.sty)
(/usr/share/texlive/texmf-dist/tex/latex/amscls/amsthm.sty)
(/usr/share/texlive/texmf-dist/tex/latex/changepage/chngpage.sty)
(/usr/share/texlive/texmf-dist/tex/latex/psnfss/times.sty))
(/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty
(/usr/share/texlive/texmf-dist/tex/generic/ltxcmds/ltxcmds.sty)
(/usr/share/texlive/texmf-dist/tex/generic/pdftexcmds/pdftexcmds.sty
(/usr/share/texlive/texmf-dist/tex/generic/infwarerr/infwarerr.sty))
(/usr/share/texlive/texmf-dist/tex/generic/kvsetkeys/kvsetkeys.sty)
(/usr/share/texlive/texmf-dist/tex/generic/kvdefinekeys/kvdefinekeys.sty)
(/usr/share/texlive/texmf-dist/tex/generic/pdfescape/pdfescape.sty)
(/usr/share/texlive/texmf-dist/tex/latex/hycolor/hycolor.sty)
(/usr/share/texlive/texmf-dist/tex/latex/letltxmacro/letltxmacro.sty)
(/usr/share/texlive/texmf-dist/tex/latex/auxhook/auxhook.sty)
(/usr/share/texlive/texmf-dist/tex/latex/kvoptions/kvoptions.sty)
(/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def)
(/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref-langpatches.def)
(/usr/share/texlive/texmf-dist/tex/generic/intcalc/intcalc.sty)
(/usr/share/texlive/texmf-dist/tex/generic/etexcmds/etexcmds.sty)
(/usr/share/texlive/texmf-dist/tex/latex/hyperref/puenc.def)
(/usr/share/texlive/texmf-dist/tex/latex/url/url.sty)
(/usr/share/texlive/texmf-dist/tex/generic/bitset/bitset.sty
(/usr/share/texlive/texmf-dist/tex/generic/bigintcalc/bigintcalc.sty))
(/usr/share/texlive/texmf-dist/tex/latex/base/atbegshi-ltx.sty))
(/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def
(/usr/share/texlive/texmf-dist/tex/latex/base/atveryend-ltx.sty)
(/usr/share/texlive/texmf-dist/tex/latex/rerunfilecheck/rerunfilecheck.sty
(/usr/share/texlive/texmf-dist/tex/generic/uniquecounter/uniquecounter.sty)))
(/usr/share/texlive/texmf-dist/tex/latex/algorithm2e/algorithm2e.sty
(/usr/share/texlive/texmf-dist/tex/latex/base/ifthen.sty)
(/usr/share/texlive/texmf-dist/tex/latex/ifoddpage/ifoddpage.sty)
(/usr/share/texlive/texmf-dist/tex/latex/tools/xspace.sty)
(/usr/share/texlive/texmf-dist/tex/latex/relsize/relsize.sty)) (./natbib.sty)
(/usr/share/texlive/texmf-dist/tex/latex/psnfss/ot1ptm.fd)
(/usr/share/texlive/texmf-dist/tex/latex/l3backend/l3backend-pdftex.def)
(./minimap2.aux)
(/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii
[Loading MPS to PDF converter (version 2006.09.02).]
) (/usr/share/texlive/texmf-dist/tex/latex/epstopdf-pkg/epstopdf-base.sty
(/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg))
(/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty
(/usr/share/texlive/texmf-dist/tex/latex/refcount/refcount.sty)
(/usr/share/texlive/texmf-dist/tex/generic/gettitlestring/gettitlestring.sty))
(./minimap2.out) (./minimap2.out)
(/usr/share/texlive/texmf-dist/tex/latex/psnfss/ot1phv.fd)
Underfull \hbox (badness 10000) detected at line 27
[]
(/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsa.fd)
(/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsb.fd)
Underfull \hbox (badness 1014) in paragraph at lines 36--47
\OT1/phv/b/n/8 Results: \OT1/phv/m/n/8 Minimap2 is a general-purpose alignment
program to
LaTeX Font Warning: Font shape `OT1/cmr/m/n' in size <6.5> not available
(Font) size <6> substituted on input line 58.
LaTeX Font Warning: Font shape `OML/cmm/m/it' in size <6.5> not available
(Font) size <6> substituted on input line 58.
LaTeX Font Warning: Font shape `OMS/cmsy/m/n' in size <6.5> not available
(Font) size <6> substituted on input line 58.
Package natbib Warning: Citation `Chaisson:2012aa' on page 1 undefined on input
line 59.
Package natbib Warning: Citation `Li:2013aa' on page 1 undefined on input line
59.
Package natbib Warning: Citation `Liu:2016ab' on page 1 undefined on input line
59.
Package natbib Warning: Citation `Sovic:2016aa' on page 1 undefined on input li
ne 59.
Package natbib Warning: Citation `Liu:2017aa' on page 1 undefined on input line
59.
Package natbib Warning: Citation `Lin:2017aa' on page 1 undefined on input line
59.
Package natbib Warning: Citation `Sedlazeck169557' on page 1 undefined on input
line 59.
Package natbib Warning: Citation `Langmead:2012fk' on page 1 undefined on input
line 61.
Package natbib Warning: Citation `Li:2013aa' on page 1 undefined on input line
61.
Package natbib Warning: Citation `Li:2016aa' on page 1 undefined on input line
66.
Package natbib Warning: Citation `Suzuki:2018aa' on page 1 undefined on input l
ine 67.
Package natbib Warning: Citation `Wu:2005vn' on page 1 undefined on input line
72.
Package natbib Warning: Citation `Iwata:2012aa' on page 1 undefined on input li
ne 72.
Package natbib Warning: Citation `Roberts:2004fv' on page 1 undefined on input
line 90.
Package natbib Warning: Citation `Li:2016aa' on page 1 undefined on input line
101.
Package natbib Warning: Citation `Abouelhoda:2005aa' on page 1 undefined on inp
ut line 132.
Package natbib Warning: Citation `Li:2010fk' on page 1 undefined on input line
155.
[1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}]
Package hyperref Warning: Token not allowed in a PDF string (Unicode):
(hyperref) removing `math shift' on input line 204.
Package hyperref Warning: Token not allowed in a PDF string (Unicode):
(hyperref) removing `math shift' on input line 204.
Package natbib Warning: Citation `Berlin:2015xy' on page 2 undefined on input l
ine 217.
Package natbib Warning: Citation `Gotoh:1990aa' on page 2 undefined on input li
ne 229.
Package natbib Warning: Citation `Gotoh:1982aa' on page 2 undefined on input li
ne 251.
Package natbib Warning: Citation `Altschul:1986aa' on page 2 undefined on input
line 251.
Package natbib Warning: Citation `Farrar:2007hs' on page 2 undefined on input l
ine 257.
Package natbib Warning: Citation `Wu:1996aa' on page 2 undefined on input line
261.
Package natbib Warning: Citation `Suzuki:2018aa' on page 2 undefined on input l
ine 261.
Package natbib Warning: Citation `Farrar:2007hs' on page 2 undefined on input l
ine 329.
Overfull \hbox (261.0pt too wide) has occurred while \output is active
[][]
Overfull \vbox (1.0pt too high) has occurred while \output is active
Overfull \hbox (261.0pt too wide) has occurred while \output is active
[][]
[2]
Package natbib Warning: Citation `Daily:2016aa' on page 3 undefined on input li
ne 359.
Package natbib Warning: Citation `Sosic:2017aa' on page 3 undefined on input li
ne 360.
Package natbib Warning: Citation `Altschul:1997vn' on page 3 undefined on input
line 379.
Underfull \hbox (badness 1769) in paragraph at lines 382--386
\OT1/ptm/m/n/8 performs local alignment between the two subsequences involved i
n
Package natbib Warning: Citation `Irimia:2008aa' on page 3 undefined on input l
ine 436.
Package natbib Warning: Citation `Zhang:2006aa' on page 3 undefined on input li
ne 443.
Overfull \hbox (261.0pt too wide) has occurred while \output is active
[][]
Overfull \vbox (1.0pt too high) has occurred while \output is active [3]
LaTeX Font Warning: Font shape `OT1/cmtt/m/n' in size <6.5> not available
(Font) size <6> substituted on input line 492.
Overfull \hbox (9.0pt too wide) in paragraph at lines 496--515
[][]
Package natbib Warning: Citation `Ono:2013aa' on page 4 undefined on input line
515.
Package natbib Warning: Citation `Holtgrewe:2010aa' on page 4 undefined on inpu
t line 515.
Package natbib Warning: Citation `Chaisson:2012aa' on page 4 undefined on input
line 519.
Package natbib Warning: Citation `Li:2013aa' on page 4 undefined on input line
520.
Package natbib Warning: Citation `Sovic:2016aa' on page 4 undefined on input li
ne 521.
Package natbib Warning: Citation `Lin:2017aa' on page 4 undefined on input line
522.
Package natbib Warning: Citation `Sedlazeck169557' on page 4 undefined on input
line 524.
Package natbib Warning: Citation `Liu:2016ab' on page 4 undefined on input line
524.
Package natbib Warning: Citation `Liu:2017aa' on page 4 undefined on input line
525.
Package natbib Warning: Citation `Jain128835' on page 4 undefined on input line
539.
Package natbib Warning: Citation `Robinson:2011aa' on page 4 undefined on input
line 541.
Package natbib Warning: Citation `Sedlazeck169557' on page 4 undefined on input
line 542.
Package natbib Warning: Citation `Byrne:2017aa' on page 4 undefined on input li
ne 549.
Package natbib Warning: Citation `Irimia:2008aa' on page 4 undefined on input l
ine 558.
Package natbib Warning: Citation `Li:2009ys' on page 4 undefined on input line
587.
Package natbib Warning: Citation `Byrne:2017aa' on page 4 undefined on input li
ne 590.
Package natbib Warning: Citation `Wu:2005vn' on page 4 undefined on input line
591.
Package natbib Warning: Citation `Iwata:2012aa' on page 4 undefined on input li
ne 591.
Package natbib Warning: Citation `Dobin:2013kx' on page 4 undefined on input li
ne 592.
Underfull \hbox (badness 4634) in paragraph at lines 598--610
\OT1/ptm/m/n/9 Direct RNA-seq dataset ([]http://bit.ly/na12878ont[]). Minimap2
Overfull \hbox (261.0pt too wide) has occurred while \output is active
[][]
Overfull \vbox (1.0pt too high) has occurred while \output is active
Overfull \hbox (261.0pt too wide) has occurred while \output is active
[][]
[4 <./roc-color.pdf>]
Package natbib Warning: Citation `Langmead:2012fk' on page 5 undefined on input
line 637.
Package natbib Warning: Citation `Zaharia:2011aa' on page 5 undefined on input
line 638.
Package natbib Warning: Citation `Depristo:2011vn' on page 5 undefined on input
line 649.
Package natbib Warning: Citation `Li223297' on page 5 undefined on input line 6
53.
Package natbib Warning: Citation `Marcais:2018aa' on page 5 undefined on input
line 664.
Underfull \hbox (badness 2027) in paragraph at lines 687--700
[]\OT1/ptm/m/n/9 The capability of minimap2 comes from a fast base-level
Underfull \hbox (badness 1226) in paragraph at lines 714--719
\OT1/ptm/m/n/9 releasing their masterpiece and insightful notes before formal
Package hyperref Warning: Difference (3) between bookmark levels is greater
(hyperref) than one, level fixed on input line 720.
(./minimap2.bbl
Overfull \hbox (261.0pt too wide) has occurred while \output is active
[][]
Overfull \vbox (1.0pt too high) has occurred while \output is active [5]
Underfull \hbox (badness 1953) in paragraph at lines 120--123
[]\OT1/ptm/m/n/7 Li, H. et al. (2009). The Sequence Alignment/Map format and S
AMtools.
)
Overfull \hbox (261.0pt too wide) has occurred while \output is active
[][]
Overfull \hbox (261.0pt too wide) has occurred while \output is active
[][]
[6]
Package natbib Warning: There were undefined citations.
(./minimap2.aux
Package natbib Warning: Citation(s) may have changed.
(natbib) Rerun to get citations correct.
)
LaTeX Font Warning: Size substitutions with differences
(Font) up to 0.5pt have occurred.
)
(see the transcript file for additional information){/usr/share/texlive/texmf-d
ist/fonts/enc/dvips/base/8r.enc}</usr/share/texlive/texmf-dist/fonts/type1/publ
ic/amsfonts/cmextra/cmex8.pfb></usr/share/texlive/texmf-dist/fonts/type1/public
/amsfonts/cm/cmmi6.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfon
ts/cm/cmmi8.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/c
mmi9.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmr6.pfb
></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmr8.pfb></usr/s
hare/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmr9.pfb></usr/share/tex
live/texmf-dist/fonts/type1/public/amsfonts/cm/cmsy6.pfb></usr/share/texlive/te
xmf-dist/fonts/type1/public/amsfonts/cm/cmsy8.pfb></usr/share/texlive/texmf-dis
t/fonts/type1/public/amsfonts/cm/cmsy9.pfb></usr/share/texlive/texmf-dist/fonts
/type1/public/amsfonts/cm/cmtt8.pfb></usr/share/texlive/texmf-dist/fonts/type1/
public/amsfonts/cm/cmtt9.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/
amsfonts/symbols/msam10.pfb></usr/share/texlive/texmf-dist/fonts/type1/urw/helv
etic/uhvb8a.pfb></usr/share/texlive/texmf-dist/fonts/type1/urw/helvetic/uhvbo8a
.pfb></usr/share/texlive/texmf-dist/fonts/type1/urw/helvetic/uhvr8a.pfb></usr/s
hare/texlive/texmf-dist/fonts/type1/urw/times/utmb8a.pfb></usr/share/texlive/te
xmf-dist/fonts/type1/urw/times/utmr8a.pfb></usr/share/texlive/texmf-dist/fonts/
type1/urw/times/utmri8a.pfb>
Output written on minimap2.pdf (6 pages, 265403 bytes).
Transcript written on minimap2.log.
This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdflatex)
restricted \write18 enabled.
entering extended mode
(./minimap2.tex
LaTeX2e <2021-11-15> patch level 1
L3 programming layer <2022-01-21> (./bioinfo.cls
Document Class: bioinfo 2003/02/08 0.1
(/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty)
(/usr/share/texlive/texmf-dist/tex/latex/crop/crop.sty
(/usr/share/texlive/texmf-dist/tex/generic/iftex/ifluatex.sty
(/usr/share/texlive/texmf-dist/tex/generic/iftex/iftex.sty))
(/usr/share/texlive/texmf-dist/tex/latex/graphics/color.sty
(/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/color.cfg)
(/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def))
(/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty
(/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty)
(/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/graphics.cfg)))
(/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty
(/usr/share/texlive/texmf-dist/tex/latex/graphics/keyval.sty))
(/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsmath.sty
For additional information on amsmath, use the `?' option.
(/usr/share/texlive/texmf-dist/tex/latex/amsmath/amstext.sty
(/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsgen.sty))
(/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsbsy.sty)
(/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsopn.sty))
(/usr/share/texlive/texmf-dist/tex/latex/tools/array.sty)
(/usr/share/texlive/texmf-dist/tex/latex/amsfonts/amssymb.sty
(/usr/share/texlive/texmf-dist/tex/latex/amsfonts/amsfonts.sty))
(/usr/share/texlive/texmf-dist/tex/latex/sttools/flushend.sty)
(/usr/share/texlive/texmf-dist/tex/latex/sttools/stfloats.sty)
(/usr/share/texlive/texmf-dist/tex/latex/amscls/amsthm.sty)
(/usr/share/texlive/texmf-dist/tex/latex/changepage/chngpage.sty)
(/usr/share/texlive/texmf-dist/tex/latex/psnfss/times.sty))
(/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty
(/usr/share/texlive/texmf-dist/tex/generic/ltxcmds/ltxcmds.sty)
(/usr/share/texlive/texmf-dist/tex/generic/pdftexcmds/pdftexcmds.sty
(/usr/share/texlive/texmf-dist/tex/generic/infwarerr/infwarerr.sty))
(/usr/share/texlive/texmf-dist/tex/generic/kvsetkeys/kvsetkeys.sty)
(/usr/share/texlive/texmf-dist/tex/generic/kvdefinekeys/kvdefinekeys.sty)
(/usr/share/texlive/texmf-dist/tex/generic/pdfescape/pdfescape.sty)
(/usr/share/texlive/texmf-dist/tex/latex/hycolor/hycolor.sty)
(/usr/share/texlive/texmf-dist/tex/latex/letltxmacro/letltxmacro.sty)
(/usr/share/texlive/texmf-dist/tex/latex/auxhook/auxhook.sty)
(/usr/share/texlive/texmf-dist/tex/latex/kvoptions/kvoptions.sty)
(/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def)
(/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref-langpatches.def)
(/usr/share/texlive/texmf-dist/tex/generic/intcalc/intcalc.sty)
(/usr/share/texlive/texmf-dist/tex/generic/etexcmds/etexcmds.sty)
(/usr/share/texlive/texmf-dist/tex/latex/hyperref/puenc.def)
(/usr/share/texlive/texmf-dist/tex/latex/url/url.sty)
(/usr/share/texlive/texmf-dist/tex/generic/bitset/bitset.sty
(/usr/share/texlive/texmf-dist/tex/generic/bigintcalc/bigintcalc.sty))
(/usr/share/texlive/texmf-dist/tex/latex/base/atbegshi-ltx.sty))
(/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def
(/usr/share/texlive/texmf-dist/tex/latex/base/atveryend-ltx.sty)
(/usr/share/texlive/texmf-dist/tex/latex/rerunfilecheck/rerunfilecheck.sty
(/usr/share/texlive/texmf-dist/tex/generic/uniquecounter/uniquecounter.sty)))
(/usr/share/texlive/texmf-dist/tex/latex/algorithm2e/algorithm2e.sty
(/usr/share/texlive/texmf-dist/tex/latex/base/ifthen.sty)
(/usr/share/texlive/texmf-dist/tex/latex/ifoddpage/ifoddpage.sty)
(/usr/share/texlive/texmf-dist/tex/latex/tools/xspace.sty)
(/usr/share/texlive/texmf-dist/tex/latex/relsize/relsize.sty)) (./natbib.sty)
(/usr/share/texlive/texmf-dist/tex/latex/psnfss/ot1ptm.fd)
(/usr/share/texlive/texmf-dist/tex/latex/l3backend/l3backend-pdftex.def)
(./minimap2.aux)
(/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii
[Loading MPS to PDF converter (version 2006.09.02).]
) (/usr/share/texlive/texmf-dist/tex/latex/epstopdf-pkg/epstopdf-base.sty
(/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg))
(/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty
(/usr/share/texlive/texmf-dist/tex/latex/refcount/refcount.sty)
(/usr/share/texlive/texmf-dist/tex/generic/gettitlestring/gettitlestring.sty))
(./minimap2.out) (./minimap2.out)
(/usr/share/texlive/texmf-dist/tex/latex/psnfss/ot1phv.fd)
Underfull \hbox (badness 10000) detected at line 27
[]
(/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsa.fd)
(/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsb.fd)
Underfull \hbox (badness 1014) in paragraph at lines 36--47
\OT1/phv/b/n/8 Results: \OT1/phv/m/n/8 Minimap2 is a general-purpose alignment
program to
LaTeX Font Warning: Font shape `OT1/cmr/m/n' in size <6.5> not available
(Font) size <6> substituted on input line 58.
LaTeX Font Warning: Font shape `OML/cmm/m/it' in size <6.5> not available
(Font) size <6> substituted on input line 58.
LaTeX Font Warning: Font shape `OMS/cmsy/m/n' in size <6.5> not available
(Font) size <6> substituted on input line 58.
Underfull \hbox (badness 1478) in paragraph at lines 71--80
\OT1/ptm/m/n/9 minor modifications could enable the base algorithm to map
Underfull \hbox (badness 1019) in paragraph at lines 71--80
\OT1/ptm/m/n/9 mRNAs as well. Minimap2 becomes a first RNA-seq aligner
[1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}]
Package hyperref Warning: Token not allowed in a PDF string (Unicode):
(hyperref) removing `math shift' on input line 204.
Package hyperref Warning: Token not allowed in a PDF string (Unicode):
(hyperref) removing `math shift' on input line 204.
Underfull \vbox (badness 10000) has occurred while \output is active
Overfull \hbox (261.0pt too wide) has occurred while \output is active
[][]
Overfull \vbox (1.0pt too high) has occurred while \output is active
Overfull \hbox (261.0pt too wide) has occurred while \output is active
[][]
[2]
Underfull \hbox (badness 1769) in paragraph at lines 382--386
\OT1/ptm/m/n/8 performs local alignment between the two subsequences involved i
n
Overfull \hbox (261.0pt too wide) has occurred while \output is active
[][]
Overfull \vbox (1.0pt too high) has occurred while \output is active [3]
LaTeX Font Warning: Font shape `OT1/cmtt/m/n' in size <6.5> not available
(Font) size <6> substituted on input line 492.
Overfull \hbox (9.0pt too wide) in paragraph at lines 496--515
[][]
Underfull \hbox (badness 1248) in paragraph at lines 518--535
[]\OT1/ptm/m/n/9 2016[]), Kart (v2.2.5; []Lin and Hsu[], []2017[]), minialign (
v0.5.3;
Overfull \hbox (3.90332pt too wide) in paragraph at lines 518--535
[]\OT1/ptm/m/n/9 https://github.com/ocxtal/minialign[]) and NGMLR (v0.2.5; []Se
dlazeck
Underfull \hbox (badness 2189) in paragraph at lines 590--597
\OT1/ptm/m/n/9 GMAP (v2017-06-20; []Wu and Watanabe[], []2005[]), minimap2,
Underfull \hbox (badness 1424) in paragraph at lines 590--597
\OT1/ptm/m/n/9 et al.[], []2013[]). In general, minimap2 is more consistent wit
h
Overfull \hbox (261.0pt too wide) has occurred while \output is active
[][]
Overfull \vbox (1.0pt too high) has occurred while \output is active
Overfull \hbox (261.0pt too wide) has occurred while \output is active
[][]
[4 <./roc-color.pdf>]
Underfull \hbox (badness 4634) in paragraph at lines 598--610
\OT1/ptm/m/n/9 Direct RNA-seq dataset ([]http://bit.ly/na12878ont[]). Minimap2
Underfull \hbox (badness 2096) in paragraph at lines 647--659
\OT1/ptm/m/n/9 v3.5 ([]Depristo et al.[], []2011[]). This run was sequenced fro
m
Underfull \hbox (badness 1454) in paragraph at lines 662--671
\OT1/ptm/m/n/9 the paftools.js script from the minimap2 package, we called
Underfull \hbox (badness 1137) in paragraph at lines 662--671
\OT1/ptm/m/n/9 regions. The transition-to-transversion ratio (ts/tv) is 2.01. I
n
Underfull \hbox (badness 2027) in paragraph at lines 687--700
[]\OT1/ptm/m/n/9 The capability of minimap2 comes from a fast base-level
Underfull \hbox (badness 1226) in paragraph at lines 714--719
\OT1/ptm/m/n/9 releasing their masterpiece and insightful notes before formal
Package hyperref Warning: Difference (3) between bookmark levels is greater
(hyperref) than one, level fixed on input line 720.
(./minimap2.bbl
Overfull \hbox (261.0pt too wide) has occurred while \output is active
[][]
Overfull \vbox (1.0pt too high) has occurred while \output is active [5]
Underfull \hbox (badness 1953) in paragraph at lines 120--123
[]\OT1/ptm/m/n/7 Li, H. et al. (2009). The Sequence Alignment/Map format and S
AMtools.
Underfull \vbox (badness 10000) has occurred while \output is active)
Overfull \hbox (261.0pt too wide) has occurred while \output is active
[][]
Overfull \hbox (261.0pt too wide) has occurred while \output is active
[][]
[6] (./minimap2.aux)
LaTeX Font Warning: Size substitutions with differences
(Font) up to 0.5pt have occurred.
)
(see the transcript file for additional information){/usr/share/texlive/texmf-d
ist/fonts/enc/dvips/base/8r.enc}</usr/share/texlive/texmf-dist/fonts/type1/publ
ic/amsfonts/cmextra/cmex8.pfb></usr/share/texlive/texmf-dist/fonts/type1/public
/amsfonts/cm/cmmi6.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfon
ts/cm/cmmi8.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/c
mmi9.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmr6.pfb
></usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmr8.pfb></usr/s
hare/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmr9.pfb></usr/share/tex
live/texmf-dist/fonts/type1/public/amsfonts/cm/cmsy6.pfb></usr/share/texlive/te
xmf-dist/fonts/type1/public/amsfonts/cm/cmsy8.pfb></usr/share/texlive/texmf-dis
t/fonts/type1/public/amsfonts/cm/cmsy9.pfb></usr/share/texlive/texmf-dist/fonts
/type1/public/amsfonts/cm/cmtt8.pfb></usr/share/texlive/texmf-dist/fonts/type1/
public/amsfonts/cm/cmtt9.pfb></usr/share/texlive/texmf-dist/fonts/type1/public/
amsfonts/symbols/msam10.pfb></usr/share/texlive/texmf-dist/fonts/type1/urw/helv
etic/uhvb8a.pfb></usr/share/texlive/texmf-dist/fonts/type1/urw/helvetic/uhvbo8a
.pfb></usr/share/texlive/texmf-dist/fonts/type1/urw/helvetic/uhvr8a.pfb></usr/s
hare/texlive/texmf-dist/fonts/type1/urw/times/utmb8a.pfb></usr/share/texlive/te
xmf-dist/fonts/type1/urw/times/utmr8a.pfb></usr/share/texlive/texmf-dist/fonts/
type1/urw/times/utmri8a.pfb>
Output written on minimap2.pdf (6 pages, 268993 bytes).
Transcript written on minimap2.log.
make[2]: Leaving directory '/<<BUILDDIR>>/minimap2-2.24+dfsg/tex'
dh_auto_build --buildsystem=pybuild
I: pybuild base:237: /usr/bin/python3.10 setup.py build
running build
running build_ext
cythoning python/mappy.pyx to python/mappy.c
/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: /<<BUILDDIR>>/minimap2-2.24+dfsg/python/mappy.pyx
tree = Parsing.p_module(s, pxd, full_module_name)
building 'mappy' extension
creating build
creating build/temp.linux-armhf-3.10
creating build/temp.linux-armhf-3.10/python
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.10 -c align.c -o build/temp.linux-armhf-3.10/align.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
align.c: In function 'mm_get_hplen_back':
align.c:349:43: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare]
349 | if (mm_seq4_get(mi->S, i) != c) break;
| ^~
align.c: In function 'mm_seed_ext_score':
align.c:536:56: warning: operand of '?:' changes signedness from 'int' to 'uint32_t' {aka 'unsigned int'} due to unsignedness of other operand [-Wsign-compare]
536 | re = re + ext_len < (int32_t)mi->seq[rid].len? re + ext_len : mi->seq[rid].len;
| ^~~~~~~~~~~~
align.c: In function 'mm_align1':
align.c:630:59: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'uint32_t' {aka 'unsigned int'} due to unsignedness of other operand [-Wsign-compare]
630 | re0 = re + l < (int32_t)mi->seq[rid].len? re + l : mi->seq[rid].len;
| ^~~~~~
align.c:682:65: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'uint32_t' {aka 'unsigned int'} due to unsignedness of other operand [-Wsign-compare]
682 | l = l < (int32_t)mi->seq[rid].len - re? l : mi->seq[rid].len - re;
| ^
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.10 -c bseq.c -o build/temp.linux-armhf-3.10/bseq.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.10 -c esterr.c -o build/temp.linux-armhf-3.10/esterr.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.10 -c format.c -o build/temp.linux-armhf-3.10/format.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.10 -c hit.c -o build/temp.linux-armhf-3.10/hit.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
hit.c: In function 'mm_hit_sort':
hit.c:190:55: warning: variable 'no_cigar' set but not used [-Wunused-but-set-variable]
190 | int32_t i, n_aux, n = *n_regs, has_cigar = 0, no_cigar = 0;
| ^~~~~~~~
hit.c:190:40: warning: variable 'has_cigar' set but not used [-Wunused-but-set-variable]
190 | int32_t i, n_aux, n = *n_regs, has_cigar = 0, no_cigar = 0;
| ^~~~~~~~~
hit.c: In function 'mm_gen_regs':
hit.c:74:25: warning: argument 1 range [2147483648, 4294967295] exceeds maximum object size 2147483647 [-Walloc-size-larger-than=]
74 | r = (mm_reg1_t*)calloc(n_u, sizeof(mm_reg1_t));
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from hit.c:2:
/usr/include/stdlib.h:542:14: note: in a call to allocation function 'calloc' declared here
542 | extern void *calloc (size_t __nmemb, size_t __size)
| ^~~~~~
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.10 -c index.c -o build/temp.linux-armhf-3.10/index.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
index.c: In function 'mm_idx_name2id':
index.c:149:32: warning: operand of '?:' changes signedness from 'int' to 'uint32_t' {aka 'unsigned int'} due to unsignedness of other operand [-Wsign-compare]
149 | return k == kh_end(h)? -1 : kh_val(h, k);
| ^~
index.c: In function 'mm_idx_gen':
index.c:381:70: warning: operand of '?:' changes signedness from 'int' to 'uint64_t' {aka 'long long unsigned int'} due to unsignedness of other operand [-Wsign-compare]
381 | pl.mini_batch_size = (uint64_t)mini_batch_size < batch_size? mini_batch_size : batch_size;
| ^~~~~~~~~~~~~~~
index.c: In function 'mm_idx_dump':
index.c:482:23: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare]
482 | for (i = 0; i < 1<<mi->b; ++i) {
| ^
index.c: In function 'mm_idx_load':
index.c:530:23: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare]
530 | for (i = 0; i < 1<<mi->b; ++i) {
| ^
index.c: In function 'mm_idx_bed_read':
index.c:747:23: warning: comparison of integer expressions of different signedness: 'int32_t' {aka 'int'} and 'uint32_t' {aka 'unsigned int'} [-Wsign-compare]
747 | for (i = 0; i < mi->n_seq; ++i) // TODO: eliminate redundant intervals
| ^
index.c: In function 'mm_idx_bed_junc':
index.c:757:42: warning: comparison of integer expressions of different signedness: 'int32_t' {aka 'int'} and 'uint32_t' {aka 'unsigned int'} [-Wsign-compare]
757 | if (mi->I == 0 || ctg < 0 || ctg >= mi->n_seq) return -1;
| ^~
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.10 -c kalloc.c -o build/temp.linux-armhf-3.10/kalloc.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.10 -c ksw2_extd2_sse.c -o build/temp.linux-armhf-3.10/ksw2_extd2_sse.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
ksw2_extd2_sse.c:6: warning: "SIMDE_ENABLE_NATIVE_ALIASES" redefined
6 | #define SIMDE_ENABLE_NATIVE_ALIASES
|
<command-line>: note: this is the location of the previous definition
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.10 -c ksw2_exts2_sse.c -o build/temp.linux-armhf-3.10/ksw2_exts2_sse.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
ksw2_exts2_sse.c:6: warning: "SIMDE_ENABLE_NATIVE_ALIASES" redefined
6 | #define SIMDE_ENABLE_NATIVE_ALIASES
|
<command-line>: note: this is the location of the previous definition
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.10 -c ksw2_extz2_sse.c -o build/temp.linux-armhf-3.10/ksw2_extz2_sse.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
ksw2_extz2_sse.c:5: warning: "SIMDE_ENABLE_NATIVE_ALIASES" redefined
5 | #define SIMDE_ENABLE_NATIVE_ALIASES
|
<command-line>: note: this is the location of the previous definition
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.10 -c ksw2_ll_sse.c -o build/temp.linux-armhf-3.10/ksw2_ll_sse.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.10 -c kthread.c -o build/temp.linux-armhf-3.10/kthread.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.10 -c lchain.c -o build/temp.linux-armhf-3.10/lchain.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
lchain.c: In function 'mg_chain_bk_end':
lchain.c:18:37: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'uint64_t' {aka 'long long unsigned int'} due to unsignedness of other operand [-Wsign-compare]
18 | s = i < 0? z[k].x : (int32_t)z[k].x - f[i];
| ^~~~~~~~~~~~~~~~~~~~~~
lchain.c: In function 'mg_chain_backtrack':
lchain.c:51:46: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'uint64_t' {aka 'long long unsigned int'} due to unsignedness of other operand [-Wsign-compare]
51 | sc = i < 0? z[k].x : (int32_t)z[k].x - f[i];
| ^~~~~~~~~~~~~~~~~~~~~~
lchain.c:66:46: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'uint64_t' {aka 'long long unsigned int'} due to unsignedness of other operand [-Wsign-compare]
66 | sc = i < 0? z[k].x : (int32_t)z[k].x - f[i];
| ^~~~~~~~~~~~~~~~~~~~~~
lchain.c: In function 'mg_lchain_dp':
lchain.c:190:56: warning: comparison of integer expressions of different signedness: 'uint64_t' {aka 'long long unsigned int'} and 'long long int' [-Wsign-compare]
190 | if (max_ii < 0 || a[i].x - a[max_ii].x > (int64_t)max_dist_x) {
| ^
lchain.c:204:57: warning: comparison of integer expressions of different signedness: 'uint64_t' {aka 'long long unsigned int'} and 'long long int' [-Wsign-compare]
204 | if (max_ii < 0 || (a[i].x - a[max_ii].x <= (int64_t)max_dist_x && f[max_ii] < f[i]))
| ^~
lchain.c: In function 'mg_lchain_rmq':
lchain.c:295:117: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
295 | while (st < i && (a[i].x>>32 != a[st].x>>32 || a[i].x > a[st].x + max_dist || krmq_size(head, root) > cap_rmq_size)) {
| ^
lchain.c:304:155: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
304 | while (st_inner < i && (a[i].x>>32 != a[st_inner].x>>32 || a[i].x > a[st_inner].x + max_dist_inner || krmq_size(head, root_inner) > cap_rmq_size)) {
| ^
lchain.c:357:34: warning: comparison of integer expressions of different signedness: 'int32_t' {aka 'int'} and 'unsigned int' [-Wsign-compare]
357 | if (max_rmq_size < krmq_size(head, root)) max_rmq_size = krmq_size(head, root);
| ^
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.10 -c map.c -o build/temp.linux-armhf-3.10/map.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
map.c: In function 'mm_dust_minier':
map.c:53:70: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'uint64_t' {aka 'long long unsigned int'} due to unsignedness of other operand [-Wsign-compare]
53 | int ss = s > (int32_t)(dreg[v]>>32)? s : dreg[v]>>32;
| ^
map.c:54:64: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'unsigned int' due to unsignedness of other operand [-Wsign-compare]
54 | int ee = e < (int32_t)dreg[v]? e : (uint32_t)dreg[v];
| ^
map.c: In function 'mm_map_frag':
map.c:370:60: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=]
370 | fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest);
| ~~^ ~~~~~~~~~~~~~
| | |
| long int size_t {aka unsigned int}
| %d
map.c:370:70: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'size_t' {aka 'unsigned int'} [-Wformat=]
370 | fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest);
| ~~^ ~~~~~~~~~~~~
| | |
| long int size_t {aka unsigned int}
| %d
map.c:370:82: warning: format '%ld' expects argument of type 'long int', but argument 7 has type 'size_t' {aka 'unsigned int'} [-Wformat=]
370 | fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest);
| ~~^ ~~~~~~~~~~~~
| | |
| long int size_t {aka unsigned int}
| %d
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.10 -c misc.c -o build/temp.linux-armhf-3.10/misc.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.10 -c options.c -o build/temp.linux-armhf-3.10/options.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.10 -c pe.c -o build/temp.linux-armhf-3.10/pe.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.10 -c python/mappy.c -o build/temp.linux-armhf-3.10/python/mappy.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.10 -c sdust.c -o build/temp.linux-armhf-3.10/sdust.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.10 -c seed.c -o build/temp.linux-armhf-3.10/seed.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
seed.c: In function 'mm_seed_mz_flt':
seed.c:9:19: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'unsigned int'} and 'int32_t' {aka 'int'} [-Wsign-compare]
9 | if (mv->n <= q_occ_max || q_occ_frac <= 0.0f || q_occ_max <= 0) return;
| ^~
seed.c: In function 'mm_seed_select':
seed.c:65:28: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare]
65 | if (a[i].n > max_occ) ++m;
| ^
seed.c:68:38: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare]
68 | if (i == n || a[i].n <= max_occ) {
| ^~
seed.c:71:54: warning: operand of '?:' changes signedness from 'int' to 'unsigned int' due to unsignedness of other operand [-Wsign-compare]
71 | int32_t pe = i == n? len : (uint32_t)a[i].q_pos>>1;
| ^~~
seed.c:81:60: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare]
81 | if (a[j].n < (int32_t)(b[0]>>32)) { // then update the heap
| ^
seed.c:90:52: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare]
90 | if (a[j].n > max_max_occ)
| ^
seed.c: In function 'mm_collect_matches':
seed.c:109:31: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'unsigned int'} and 'int' [-Wsign-compare]
109 | for (i = 0; i < n_m0; ++i)
| ^
seed.c:110:36: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare]
110 | if (m[i].n > max_occ)
| ^
seed.c:113:56: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'unsigned int'} and 'int' [-Wsign-compare]
113 | for (i = 0, n_m = 0, *rep_len = 0, *n_a = 0; i < n_m0; ++i) {
| ^
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.10 -c sketch.c -o build/temp.linux-armhf-3.10/sketch.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.10 -c splitidx.c -o build/temp.linux-armhf-3.10/splitidx.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-3.10/align.o build/temp.linux-armhf-3.10/bseq.o build/temp.linux-armhf-3.10/esterr.o build/temp.linux-armhf-3.10/format.o build/temp.linux-armhf-3.10/hit.o build/temp.linux-armhf-3.10/index.o build/temp.linux-armhf-3.10/kalloc.o build/temp.linux-armhf-3.10/ksw2_extd2_sse.o build/temp.linux-armhf-3.10/ksw2_exts2_sse.o build/temp.linux-armhf-3.10/ksw2_extz2_sse.o build/temp.linux-armhf-3.10/ksw2_ll_sse.o build/temp.linux-armhf-3.10/kthread.o build/temp.linux-armhf-3.10/lchain.o build/temp.linux-armhf-3.10/map.o build/temp.linux-armhf-3.10/misc.o build/temp.linux-armhf-3.10/options.o build/temp.linux-armhf-3.10/pe.o build/temp.linux-armhf-3.10/python/mappy.o build/temp.linux-armhf-3.10/sdust.o build/temp.linux-armhf-3.10/seed.o build/temp.linux-armhf-3.10/sketch.o build/temp.linux-armhf-3.10/splitidx.o -lz -lm -lpthread -o /<<BUILDDIR>>/minimap2-2.24+dfsg/.pybuild/cpython3_3.10/build/mappy.cpython-310-arm-linux-gnueabihf.so
running build_scripts
creating build/scripts-3.10
copying and adjusting python/minimap2.py -> build/scripts-3.10
changing mode of build/scripts-3.10/minimap2.py from 644 to 755
I: pybuild base:237: /usr/bin/python3 setup.py build
running build
running build_ext
skipping 'python/mappy.c' Cython extension (up-to-date)
building 'mappy' extension
creating build/temp.linux-armhf-3.9
creating build/temp.linux-armhf-3.9/python
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c align.c -o build/temp.linux-armhf-3.9/align.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
align.c: In function 'mm_get_hplen_back':
align.c:349:43: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare]
349 | if (mm_seq4_get(mi->S, i) != c) break;
| ^~
align.c: In function 'mm_seed_ext_score':
align.c:536:56: warning: operand of '?:' changes signedness from 'int' to 'uint32_t' {aka 'unsigned int'} due to unsignedness of other operand [-Wsign-compare]
536 | re = re + ext_len < (int32_t)mi->seq[rid].len? re + ext_len : mi->seq[rid].len;
| ^~~~~~~~~~~~
align.c: In function 'mm_align1':
align.c:630:59: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'uint32_t' {aka 'unsigned int'} due to unsignedness of other operand [-Wsign-compare]
630 | re0 = re + l < (int32_t)mi->seq[rid].len? re + l : mi->seq[rid].len;
| ^~~~~~
align.c:682:65: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'uint32_t' {aka 'unsigned int'} due to unsignedness of other operand [-Wsign-compare]
682 | l = l < (int32_t)mi->seq[rid].len - re? l : mi->seq[rid].len - re;
| ^
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c bseq.c -o build/temp.linux-armhf-3.9/bseq.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c esterr.c -o build/temp.linux-armhf-3.9/esterr.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c format.c -o build/temp.linux-armhf-3.9/format.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c hit.c -o build/temp.linux-armhf-3.9/hit.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
hit.c: In function 'mm_hit_sort':
hit.c:190:55: warning: variable 'no_cigar' set but not used [-Wunused-but-set-variable]
190 | int32_t i, n_aux, n = *n_regs, has_cigar = 0, no_cigar = 0;
| ^~~~~~~~
hit.c:190:40: warning: variable 'has_cigar' set but not used [-Wunused-but-set-variable]
190 | int32_t i, n_aux, n = *n_regs, has_cigar = 0, no_cigar = 0;
| ^~~~~~~~~
hit.c: In function 'mm_gen_regs':
hit.c:74:25: warning: argument 1 range [2147483648, 4294967295] exceeds maximum object size 2147483647 [-Walloc-size-larger-than=]
74 | r = (mm_reg1_t*)calloc(n_u, sizeof(mm_reg1_t));
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from hit.c:2:
/usr/include/stdlib.h:542:14: note: in a call to allocation function 'calloc' declared here
542 | extern void *calloc (size_t __nmemb, size_t __size)
| ^~~~~~
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c index.c -o build/temp.linux-armhf-3.9/index.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
index.c: In function 'mm_idx_name2id':
index.c:149:32: warning: operand of '?:' changes signedness from 'int' to 'uint32_t' {aka 'unsigned int'} due to unsignedness of other operand [-Wsign-compare]
149 | return k == kh_end(h)? -1 : kh_val(h, k);
| ^~
index.c: In function 'mm_idx_gen':
index.c:381:70: warning: operand of '?:' changes signedness from 'int' to 'uint64_t' {aka 'long long unsigned int'} due to unsignedness of other operand [-Wsign-compare]
381 | pl.mini_batch_size = (uint64_t)mini_batch_size < batch_size? mini_batch_size : batch_size;
| ^~~~~~~~~~~~~~~
index.c: In function 'mm_idx_dump':
index.c:482:23: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare]
482 | for (i = 0; i < 1<<mi->b; ++i) {
| ^
index.c: In function 'mm_idx_load':
index.c:530:23: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare]
530 | for (i = 0; i < 1<<mi->b; ++i) {
| ^
index.c: In function 'mm_idx_bed_read':
index.c:747:23: warning: comparison of integer expressions of different signedness: 'int32_t' {aka 'int'} and 'uint32_t' {aka 'unsigned int'} [-Wsign-compare]
747 | for (i = 0; i < mi->n_seq; ++i) // TODO: eliminate redundant intervals
| ^
index.c: In function 'mm_idx_bed_junc':
index.c:757:42: warning: comparison of integer expressions of different signedness: 'int32_t' {aka 'int'} and 'uint32_t' {aka 'unsigned int'} [-Wsign-compare]
757 | if (mi->I == 0 || ctg < 0 || ctg >= mi->n_seq) return -1;
| ^~
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c kalloc.c -o build/temp.linux-armhf-3.9/kalloc.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c ksw2_extd2_sse.c -o build/temp.linux-armhf-3.9/ksw2_extd2_sse.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
ksw2_extd2_sse.c:6: warning: "SIMDE_ENABLE_NATIVE_ALIASES" redefined
6 | #define SIMDE_ENABLE_NATIVE_ALIASES
|
<command-line>: note: this is the location of the previous definition
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c ksw2_exts2_sse.c -o build/temp.linux-armhf-3.9/ksw2_exts2_sse.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
ksw2_exts2_sse.c:6: warning: "SIMDE_ENABLE_NATIVE_ALIASES" redefined
6 | #define SIMDE_ENABLE_NATIVE_ALIASES
|
<command-line>: note: this is the location of the previous definition
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c ksw2_extz2_sse.c -o build/temp.linux-armhf-3.9/ksw2_extz2_sse.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
ksw2_extz2_sse.c:5: warning: "SIMDE_ENABLE_NATIVE_ALIASES" redefined
5 | #define SIMDE_ENABLE_NATIVE_ALIASES
|
<command-line>: note: this is the location of the previous definition
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c ksw2_ll_sse.c -o build/temp.linux-armhf-3.9/ksw2_ll_sse.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c kthread.c -o build/temp.linux-armhf-3.9/kthread.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c lchain.c -o build/temp.linux-armhf-3.9/lchain.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
lchain.c: In function 'mg_chain_bk_end':
lchain.c:18:37: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'uint64_t' {aka 'long long unsigned int'} due to unsignedness of other operand [-Wsign-compare]
18 | s = i < 0? z[k].x : (int32_t)z[k].x - f[i];
| ^~~~~~~~~~~~~~~~~~~~~~
lchain.c: In function 'mg_chain_backtrack':
lchain.c:51:46: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'uint64_t' {aka 'long long unsigned int'} due to unsignedness of other operand [-Wsign-compare]
51 | sc = i < 0? z[k].x : (int32_t)z[k].x - f[i];
| ^~~~~~~~~~~~~~~~~~~~~~
lchain.c:66:46: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'uint64_t' {aka 'long long unsigned int'} due to unsignedness of other operand [-Wsign-compare]
66 | sc = i < 0? z[k].x : (int32_t)z[k].x - f[i];
| ^~~~~~~~~~~~~~~~~~~~~~
lchain.c: In function 'mg_lchain_dp':
lchain.c:190:56: warning: comparison of integer expressions of different signedness: 'uint64_t' {aka 'long long unsigned int'} and 'long long int' [-Wsign-compare]
190 | if (max_ii < 0 || a[i].x - a[max_ii].x > (int64_t)max_dist_x) {
| ^
lchain.c:204:57: warning: comparison of integer expressions of different signedness: 'uint64_t' {aka 'long long unsigned int'} and 'long long int' [-Wsign-compare]
204 | if (max_ii < 0 || (a[i].x - a[max_ii].x <= (int64_t)max_dist_x && f[max_ii] < f[i]))
| ^~
lchain.c: In function 'mg_lchain_rmq':
lchain.c:295:117: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
295 | while (st < i && (a[i].x>>32 != a[st].x>>32 || a[i].x > a[st].x + max_dist || krmq_size(head, root) > cap_rmq_size)) {
| ^
lchain.c:304:155: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
304 | while (st_inner < i && (a[i].x>>32 != a[st_inner].x>>32 || a[i].x > a[st_inner].x + max_dist_inner || krmq_size(head, root_inner) > cap_rmq_size)) {
| ^
lchain.c:357:34: warning: comparison of integer expressions of different signedness: 'int32_t' {aka 'int'} and 'unsigned int' [-Wsign-compare]
357 | if (max_rmq_size < krmq_size(head, root)) max_rmq_size = krmq_size(head, root);
| ^
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c map.c -o build/temp.linux-armhf-3.9/map.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
map.c: In function 'mm_dust_minier':
map.c:53:70: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'uint64_t' {aka 'long long unsigned int'} due to unsignedness of other operand [-Wsign-compare]
53 | int ss = s > (int32_t)(dreg[v]>>32)? s : dreg[v]>>32;
| ^
map.c:54:64: warning: operand of '?:' changes signedness from 'int32_t' {aka 'int'} to 'unsigned int' due to unsignedness of other operand [-Wsign-compare]
54 | int ee = e < (int32_t)dreg[v]? e : (uint32_t)dreg[v];
| ^
map.c: In function 'mm_map_frag':
map.c:370:60: warning: format '%ld' expects argument of type 'long int', but argument 5 has type 'size_t' {aka 'unsigned int'} [-Wformat=]
370 | fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest);
| ~~^ ~~~~~~~~~~~~~
| | |
| long int size_t {aka unsigned int}
| %d
map.c:370:70: warning: format '%ld' expects argument of type 'long int', but argument 6 has type 'size_t' {aka 'unsigned int'} [-Wformat=]
370 | fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest);
| ~~^ ~~~~~~~~~~~~
| | |
| long int size_t {aka unsigned int}
| %d
map.c:370:82: warning: format '%ld' expects argument of type 'long int', but argument 7 has type 'size_t' {aka 'unsigned int'} [-Wformat=]
370 | fprintf(stderr, "QM\t%s\t%d\tcap=%ld,nCore=%ld,largest=%ld\n", qname, qlen_sum, kmst.capacity, kmst.n_cores, kmst.largest);
| ~~^ ~~~~~~~~~~~~
| | |
| long int size_t {aka unsigned int}
| %d
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c misc.c -o build/temp.linux-armhf-3.9/misc.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c options.c -o build/temp.linux-armhf-3.9/options.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c pe.c -o build/temp.linux-armhf-3.9/pe.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c python/mappy.c -o build/temp.linux-armhf-3.9/python/mappy.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c sdust.c -o build/temp.linux-armhf-3.9/sdust.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c seed.c -o build/temp.linux-armhf-3.9/seed.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
seed.c: In function 'mm_seed_mz_flt':
seed.c:9:19: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'unsigned int'} and 'int32_t' {aka 'int'} [-Wsign-compare]
9 | if (mv->n <= q_occ_max || q_occ_frac <= 0.0f || q_occ_max <= 0) return;
| ^~
seed.c: In function 'mm_seed_select':
seed.c:65:28: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare]
65 | if (a[i].n > max_occ) ++m;
| ^
seed.c:68:38: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare]
68 | if (i == n || a[i].n <= max_occ) {
| ^~
seed.c:71:54: warning: operand of '?:' changes signedness from 'int' to 'unsigned int' due to unsignedness of other operand [-Wsign-compare]
71 | int32_t pe = i == n? len : (uint32_t)a[i].q_pos>>1;
| ^~~
seed.c:81:60: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare]
81 | if (a[j].n < (int32_t)(b[0]>>32)) { // then update the heap
| ^
seed.c:90:52: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare]
90 | if (a[j].n > max_max_occ)
| ^
seed.c: In function 'mm_collect_matches':
seed.c:109:31: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'unsigned int'} and 'int' [-Wsign-compare]
109 | for (i = 0; i < n_m0; ++i)
| ^
seed.c:110:36: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' [-Wsign-compare]
110 | if (m[i].n > max_occ)
| ^
seed.c:113:56: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'unsigned int'} and 'int' [-Wsign-compare]
113 | for (i = 0, n_m = 0, *rep_len = 0, *n_a = 0; i < n_m0; ++i) {
| ^
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c sketch.c -o build/temp.linux-armhf-3.9/sketch.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I. -I/usr/include/python3.9 -c splitidx.c -o build/temp.linux-armhf-3.9/splitidx.o -DHAVE_KALLOC -DKSW_SSE2_ONLY -DUSE_SIMDE -DSIMDE_ENABLE_NATIVE_ALIASES -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP
arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<<BUILDDIR>>/minimap2-2.24+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -fopenmp-simd -O3 -DSIMDE_ENABLE_OPENMP -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armhf-3.9/align.o build/temp.linux-armhf-3.9/bseq.o build/temp.linux-armhf-3.9/esterr.o build/temp.linux-armhf-3.9/format.o build/temp.linux-armhf-3.9/hit.o build/temp.linux-armhf-3.9/index.o build/temp.linux-armhf-3.9/kalloc.o build/temp.linux-armhf-3.9/ksw2_extd2_sse.o build/temp.linux-armhf-3.9/ksw2_exts2_sse.o build/temp.linux-armhf-3.9/ksw2_extz2_sse.o build/temp.linux-armhf-3.9/ksw2_ll_sse.o build/temp.linux-armhf-3.9/kthread.o build/temp.linux-armhf-3.9/lchain.o build/temp.linux-armhf-3.9/map.o build/temp.linux-armhf-3.9/misc.o build/temp.linux-armhf-3.9/options.o build/temp.linux-armhf-3.9/pe.o build/temp.linux-armhf-3.9/python/mappy.o build/temp.linux-armhf-3.9/sdust.o build/temp.linux-armhf-3.9/seed.o build/temp.linux-armhf-3.9/sketch.o build/temp.linux-armhf-3.9/splitidx.o -lz -lm -lpthread -o /<<BUILDDIR>>/minimap2-2.24+dfsg/.pybuild/cpython3_3.9/build/mappy.cpython-39-arm-linux-gnueabihf.so
running build_scripts
creating build/scripts-3.9
copying and adjusting python/minimap2.py -> build/scripts-3.9
changing mode of build/scripts-3.9/minimap2.py from 644 to 755
make[1]: Leaving directory '/<<BUILDDIR>>/minimap2-2.24+dfsg'
debian/rules override_dh_auto_test
make[1]: Entering directory '/<<BUILDDIR>>/minimap2-2.24+dfsg'
debian/test_script
[M::mm_idx_gen::0.007*1.25] collected minimizers
[M::mm_idx_gen::0.025*2.45] sorted minimizers
[M::main::0.025*2.45] loaded/built the index for 1 target sequence(s)
[M::mm_mapopt_update::0.025*2.42] mid_occ = 10
[M::mm_idx_stat] kmer size: 15; skip: 10; is_hpc: 0; #seq: 1
[M::mm_idx_stat::0.026*2.40] distinct minimizers: 3111 (100.00% are singletons); average occurrences: 1.000; average spacing: 5.326; total length: 16569
[M::worker_pipeline::0.331*1.11] mapped 1 sequences
[M::main] Version: 2.24-r1122
[M::main] CMD: minimap2 -a test/MT-human.fa test/MT-orang.fa
[M::main] Real time: 0.346 sec; CPU: 0.382 sec; Peak RSS: 0.003 GB
[M::mm_idx_gen::0.008*1.27] collected minimizers
[M::mm_idx_gen::0.025*2.37] sorted minimizers
[M::main::0.092*1.38] loaded/built the index for 1 target sequence(s)
[M::mm_idx_stat] kmer size: 15; skip: 10; is_hpc: 0; #seq: 1
[M::mm_idx_stat::0.092*1.38] distinct minimizers: 3111 (100.00% are singletons); average occurrences: 1.000; average spacing: 5.326; total length: 16569
[M::main] Version: 2.24-r1122
[M::main] CMD: minimap2 -d MT-human.mmi test/MT-human.fa
[M::main] Real time: 0.106 sec; CPU: 0.141 sec; Peak RSS: 0.003 GB
[M::main::0.067*1.02] loaded/built the index for 1 target sequence(s)
[M::mm_mapopt_update::0.067*1.02] mid_occ = 10
[M::mm_idx_stat] kmer size: 15; skip: 10; is_hpc: 0; #seq: 1
[M::mm_idx_stat::0.067*1.02] distinct minimizers: 3111 (100.00% are singletons); average occurrences: 1.000; average spacing: 5.326; total length: 16569
[M::worker_pipeline::0.379*1.00] mapped 1 sequences
[M::main] Version: 2.24-r1122
[M::main] CMD: minimap2 -a MT-human.mmi test/MT-orang.fa
[M::main] Real time: 0.407 sec; CPU: 0.408 sec; Peak RSS: 0.004 GB
rm test.sam
make[1]: Leaving directory '/<<BUILDDIR>>/minimap2-2.24+dfsg'
create-stamp debian/debhelper-build-stamp
dh_prep -a
dh_installdirs -a
debian/rules override_dh_auto_install
make[1]: Entering directory '/<<BUILDDIR>>/minimap2-2.24+dfsg'
dh_auto_install
dh_auto_install --buildsystem=pybuild
I: pybuild base:237: /usr/bin/python3.10 setup.py install --root /<<BUILDDIR>>/minimap2-2.24+dfsg/debian/tmp
running install
/usr/lib/python3/dist-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools.
warnings.warn(
running build
running build_ext
skipping 'python/mappy.c' Cython extension (up-to-date)
running build_scripts
running install_lib
creating /<<BUILDDIR>>/minimap2-2.24+dfsg/debian/tmp/usr
creating /<<BUILDDIR>>/minimap2-2.24+dfsg/debian/tmp/usr/lib
creating /<<BUILDDIR>>/minimap2-2.24+dfsg/debian/tmp/usr/lib/python3.10
creating /<<BUILDDIR>>/minimap2-2.24+dfsg/debian/tmp/usr/lib/python3.10/dist-packages
copying /<<BUILDDIR>>/minimap2-2.24+dfsg/.pybuild/cpython3_3.10/build/mappy.cpython-310-arm-linux-gnueabihf.so -> /<<BUILDDIR>>/minimap2-2.24+dfsg/debian/tmp/usr/lib/python3.10/dist-packages
running install_egg_info
running egg_info
creating mappy.egg-info
writing mappy.egg-info/PKG-INFO
writing dependency_links to mappy.egg-info/dependency_links.txt
writing top-level names to mappy.egg-info/top_level.txt
writing manifest file 'mappy.egg-info/SOURCES.txt'
reading manifest file 'mappy.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no files found matching 'sse2neon/emmintrin.h'
adding license file 'LICENSE.txt'
writing manifest file 'mappy.egg-info/SOURCES.txt'
Copying mappy.egg-info to /<<BUILDDIR>>/minimap2-2.24+dfsg/debian/tmp/usr/lib/python3.10/dist-packages/mappy-2.24.egg-info
Skipping SOURCES.txt
running install_scripts
creating /<<BUILDDIR>>/minimap2-2.24+dfsg/debian/tmp/usr/bin
copying build/scripts-3.10/minimap2.py -> /<<BUILDDIR>>/minimap2-2.24+dfsg/debian/tmp/usr/bin
changing mode of /<<BUILDDIR>>/minimap2-2.24+dfsg/debian/tmp/usr/bin/minimap2.py to 755
I: pybuild base:237: /usr/bin/python3 setup.py install --root /<<BUILDDIR>>/minimap2-2.24+dfsg/debian/tmp
running install
/usr/lib/python3/dist-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools.
warnings.warn(
running build
running build_ext
skipping 'python/mappy.c' Cython extension (up-to-date)
running build_scripts
running install_lib
creating /<<BUILDDIR>>/minimap2-2.24+dfsg/debian/tmp/usr/lib/python3.9
creating /<<BUILDDIR>>/minimap2-2.24+dfsg/debian/tmp/usr/lib/python3.9/dist-packages
copying /<<BUILDDIR>>/minimap2-2.24+dfsg/.pybuild/cpython3_3.9/build/mappy.cpython-39-arm-linux-gnueabihf.so -> /<<BUILDDIR>>/minimap2-2.24+dfsg/debian/tmp/usr/lib/python3.9/dist-packages
running install_egg_info
running egg_info
writing mappy.egg-info/PKG-INFO
writing dependency_links to mappy.egg-info/dependency_links.txt
writing top-level names to mappy.egg-info/top_level.txt
reading manifest file 'mappy.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no files found matching 'sse2neon/emmintrin.h'
adding license file 'LICENSE.txt'
writing manifest file 'mappy.egg-info/SOURCES.txt'
Copying mappy.egg-info to /<<BUILDDIR>>/minimap2-2.24+dfsg/debian/tmp/usr/lib/python3.9/dist-packages/mappy-2.24.egg-info
Skipping SOURCES.txt
running install_scripts
copying build/scripts-3.9/minimap2.py -> /<<BUILDDIR>>/minimap2-2.24+dfsg/debian/tmp/usr/bin
changing mode of /<<BUILDDIR>>/minimap2-2.24+dfsg/debian/tmp/usr/bin/minimap2.py to 755
make[1]: Leaving directory '/<<BUILDDIR>>/minimap2-2.24+dfsg'
dh_install -a
dh_installdocs -a
dh_installchangelogs -a
debian/rules override_dh_installman
make[1]: Entering directory '/<<BUILDDIR>>/minimap2-2.24+dfsg'
dh_installman --language=C
make[1]: Leaving directory '/<<BUILDDIR>>/minimap2-2.24+dfsg'
dh_python3 -a
dh_lintian -a
dh_perl -a
dh_link -a
dh_strip_nondeterminism -a
debian/rules override_dh_compress
make[1]: Entering directory '/<<BUILDDIR>>/minimap2-2.24+dfsg'
dh_compress --exclude=.pdf
make[1]: Leaving directory '/<<BUILDDIR>>/minimap2-2.24+dfsg'
dh_fixperms -a
dh_missing -a
dh_dwz -a
debian/rules override_dh_strip
make[1]: Entering directory '/<<BUILDDIR>>/minimap2-2.24+dfsg'
dh_strip
ranlib /<<BUILDDIR>>/minimap2-2.24+dfsg/debian/libminimap2-dev/usr/lib/libminimap2.a
make[1]: Leaving directory '/<<BUILDDIR>>/minimap2-2.24+dfsg'
dh_makeshlibs -a
dh_shlibdeps -a
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/minimap2/usr/bin/minimap2 was not linked against ld-linux-armhf.so.3 (it uses none of the library's symbols)
dh_installdeb -a
dh_gencontrol -a
dpkg-gencontrol: warning: Depends field of package libminimap2-dev: substitution variable ${shlibs:Depends} used, but is not defined
dpkg-gencontrol: warning: package python3-mappy: substitution variable ${python3:Provides} unused, but is defined
dpkg-gencontrol: warning: package python3-mappy: substitution variable ${python3:Versions} unused, but is defined
dpkg-gencontrol: warning: package python3-mappy: substitution variable ${python3:Provides} unused, but is defined
dpkg-gencontrol: warning: package python3-mappy: substitution variable ${python3:Versions} unused, but is defined
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package 'minimap2' in '../minimap2_2.24+dfsg-2_armhf.deb'.
dpkg-deb: building package 'libminimap2-dev' in '../libminimap2-dev_2.24+dfsg-2_armhf.deb'.
dpkg-deb: building package 'python3-mappy-dbgsym' in '../python3-mappy-dbgsym_2.24+dfsg-2_armhf.deb'.
dpkg-deb: building package 'python3-mappy' in '../python3-mappy_2.24+dfsg-2_armhf.deb'.
dpkg-deb: building package 'minimap2-dbgsym' in '../minimap2-dbgsym_2.24+dfsg-2_armhf.deb'.
dpkg-genbuildinfo --build=any -O../minimap2_2.24+dfsg-2_armhf.buildinfo
dpkg-genchanges --build=any -mRaspbian mythic lxc autobuilder 1 <root@raspbian.org> -O../minimap2_2.24+dfsg-2_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2022-03-14T05:31:18Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
minimap2_2.24+dfsg-2_armhf.changes:
-----------------------------------
Format: 1.8
Date: Sat, 12 Mar 2022 14:43:04 +0530
Source: minimap2
Binary: libminimap2-dev minimap2 minimap2-dbgsym python3-mappy python3-mappy-dbgsym
Architecture: armhf
Version: 2.24+dfsg-2
Distribution: bookworm-staging
Urgency: medium
Maintainer: Raspbian mythic lxc autobuilder 1 <root@raspbian.org>
Changed-By: Nilesh Patra <nilesh@debian.org>
Description:
libminimap2-dev - development headers for libminimap
minimap2 - versatile pairwise aligner for genomic and spliced nucleotide seq
python3-mappy - Python3 interface minimap2
Closes: 1004455
Changes:
minimap2 (2.24+dfsg-2) unstable; urgency=medium
.
* Team Upload.
* Re-enable and adapt older simde patch to
import properly on !x86 and !arm64 (Closes: #1004455)
* d/t/control: Add superficial import test for mappy
Checksums-Sha1:
02d20f254c62cc6a5829a03c8796ae8e48a470b7 121144 libminimap2-dev_2.24+dfsg-2_armhf.deb
f6340acb024f7e18f3e68c081fda172f0a39b47e 271704 minimap2-dbgsym_2.24+dfsg-2_armhf.deb
6686fd8def837416ee7fbd024c010a5e335bc187 14270 minimap2_2.24+dfsg-2_armhf.buildinfo
e53b0fff63b1aaf3d234dada594a197b9fefa4de 390276 minimap2_2.24+dfsg-2_armhf.deb
b44e7263afeb0a2c5923c0a9e3821d42aa5fd6bd 890724 python3-mappy-dbgsym_2.24+dfsg-2_armhf.deb
3d1f0be397795ef45b61c07892abf747ca83d7dc 159760 python3-mappy_2.24+dfsg-2_armhf.deb
Checksums-Sha256:
723226e9e825e3c11c2ebcda7f87e6bf86db7f0a3f2e1a9ebc1c563534195193 121144 libminimap2-dev_2.24+dfsg-2_armhf.deb
dfb7b8c1a00f201e7bfd0ef8dd491c1d193b206b3b4dd302ddd93a8f64def88a 271704 minimap2-dbgsym_2.24+dfsg-2_armhf.deb
95ca4624ab7b933a7781199892191642f853d5d80ca55ead08a9222d3066196e 14270 minimap2_2.24+dfsg-2_armhf.buildinfo
f02236f31688e34c0965ddec8d660eddce56d9a7cbd5be485b3c0caaf74e6cfe 390276 minimap2_2.24+dfsg-2_armhf.deb
48507db4880397cc74ffd7a530cc69e10acd5d290c6be6ff4671c61d92b39a43 890724 python3-mappy-dbgsym_2.24+dfsg-2_armhf.deb
b837cc2fb232791b4427dd234ed7f903ad7900194c586faa0d2e53897883fcc8 159760 python3-mappy_2.24+dfsg-2_armhf.deb
Files:
dcfebf6c6e17df8d69e1b7746c1a95a1 121144 libdevel optional libminimap2-dev_2.24+dfsg-2_armhf.deb
e51ab2ed1a2ef126ee95ec9da5b8eaff 271704 debug optional minimap2-dbgsym_2.24+dfsg-2_armhf.deb
00129c5013cb58032a9e1167b06a55cf 14270 science optional minimap2_2.24+dfsg-2_armhf.buildinfo
26955986397f4e9cdd7b14a9ea99b0dc 390276 science optional minimap2_2.24+dfsg-2_armhf.deb
5911c5b137376df6a749fdd60bafbe71 890724 debug optional python3-mappy-dbgsym_2.24+dfsg-2_armhf.deb
b8004fc851430d5f01a65c962e0ed9e8 159760 python optional python3-mappy_2.24+dfsg-2_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
libminimap2-dev_2.24+dfsg-2_armhf.deb
-------------------------------------
new Debian package, version 2.0.
size 121144 bytes: control archive=1344 bytes.
1034 bytes, 23 lines control
970 bytes, 17 lines md5sums
Package: libminimap2-dev
Source: minimap2
Version: 2.24+dfsg-2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 354
Depends: zlib1g-dev
Section: libdevel
Priority: optional
Homepage: https://github.com/lh3/minimap2
Description: development headers for libminimap
Minimap2 is a versatile sequence alignment program that aligns DNA or
mRNA sequences against a large reference database. Typical use cases
include: (1) mapping PacBio or Oxford Nanopore genomic reads to the
human genome; (2) finding overlaps between long reads with error rate up
to ~15%; (3) splice-aware alignment of PacBio Iso-Seq or Nanopore cDNA
or Direct RNA reads against a reference genome; (4) aligning Illumina
single- or paired-end reads; (5) assembly-to-assembly alignment; (6) full-
genome alignment between two closely related species with divergence
below ~15%.
.
This package contains the C library headers for using minimap in custom tools,
along with a static library.
drwxr-xr-x root/root 0 2022-03-12 09:13 ./
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/include/
-rw-r--r-- root/root 1811 2021-12-26 20:14 ./usr/include/bseq.h
-rw-r--r-- root/root 2124 2021-12-26 20:14 ./usr/include/kalloc.h
-rw-r--r-- root/root 4400 2021-12-26 20:14 ./usr/include/kdq.h
-rw-r--r-- root/root 3969 2021-12-26 20:14 ./usr/include/ketopt.h
-rw-r--r-- root/root 21381 2021-12-26 20:14 ./usr/include/khash.h
-rw-r--r-- root/root 16446 2021-12-26 20:14 ./usr/include/krmq.h
-rw-r--r-- root/root 8780 2021-12-26 20:14 ./usr/include/kseq.h
-rw-r--r-- root/root 5145 2021-12-26 20:14 ./usr/include/ksort.h
-rw-r--r-- root/root 8586 2021-12-26 20:14 ./usr/include/ksw2.h
-rw-r--r-- root/root 291 2021-12-26 20:14 ./usr/include/kthread.h
-rw-r--r-- root/root 3029 2021-12-26 20:14 ./usr/include/kvec.h
-rw-r--r-- root/root 13793 2021-12-26 20:14 ./usr/include/minimap.h
-rw-r--r-- root/root 6507 2021-12-26 20:14 ./usr/include/mmpriv.h
-rw-r--r-- root/root 574 2021-12-26 20:14 ./usr/include/sdust.h
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/lib/
-rw-r--r-- root/root 243522 2022-03-12 09:13 ./usr/lib/libminimap2.a
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/share/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/share/doc/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/share/doc/libminimap2-dev/
-rw-r--r-- root/root 1602 2022-03-12 09:13 ./usr/share/doc/libminimap2-dev/changelog.Debian.gz
-rw-r--r-- root/root 3132 2022-01-24 12:40 ./usr/share/doc/libminimap2-dev/copyright
minimap2-dbgsym_2.24+dfsg-2_armhf.deb
-------------------------------------
new Debian package, version 2.0.
size 271704 bytes: control archive=540 bytes.
382 bytes, 12 lines control
106 bytes, 1 lines md5sums
Package: minimap2-dbgsym
Source: minimap2
Version: 2.24+dfsg-2
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 289
Depends: minimap2 (= 2.24+dfsg-2)
Section: debug
Priority: optional
Description: debug symbols for minimap2
Build-Ids: 15572ebfbf28f224d581beafeb7cfacc8b5bb1d0
drwxr-xr-x root/root 0 2022-03-12 09:13 ./
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/lib/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/lib/debug/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/lib/debug/.build-id/15/
-rw-r--r-- root/root 284872 2022-03-12 09:13 ./usr/lib/debug/.build-id/15/572ebfbf28f224d581beafeb7cfacc8b5bb1d0.debug
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/share/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/share/doc/
lrwxrwxrwx root/root 0 2022-03-12 09:13 ./usr/share/doc/minimap2-dbgsym -> minimap2
minimap2_2.24+dfsg-2_armhf.deb
------------------------------
new Debian package, version 2.0.
size 390276 bytes: control archive=1492 bytes.
1431 bytes, 27 lines control
981 bytes, 14 lines md5sums
Package: minimap2
Version: 2.24+dfsg-2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 528
Depends: libc6 (>= 2.29), zlib1g (>= 1:1.1.4)
Section: science
Priority: optional
Homepage: https://github.com/lh3/minimap2
Description: versatile pairwise aligner for genomic and spliced nucleotide sequences
Minimap2 is a versatile sequence alignment program that aligns DNA or
mRNA sequences against a large reference database. Typical use cases
include: (1) mapping PacBio or Oxford Nanopore genomic reads to the
human genome; (2) finding overlaps between long reads with error rate up
to ~15%; (3) splice-aware alignment of PacBio Iso-Seq or Nanopore cDNA
or Direct RNA reads against a reference genome; (4) aligning Illumina
single- or paired-end reads; (5) assembly-to-assembly alignment; (6) full-
genome alignment between two closely related species with divergence
below ~15%.
.
For ~10kb noisy reads sequences, minimap2 is tens of times faster than
mainstream long-read mappers such as BLASR, BWA-MEM, NGMLR and GMAP. It
is more accurate on simulated long reads and produces biologically
meaningful alignment ready for downstream analyses. For >100bp Illumina
short reads, minimap2 is three times as fast as BWA-MEM and Bowtie2, and
as accurate on simulated data. Detailed evaluations are available from
the minimap2 paper or the preprint.
drwxr-xr-x root/root 0 2022-03-12 09:13 ./
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/bin/
-rwxr-xr-x root/root 219852 2022-03-12 09:13 ./usr/bin/minimap2
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/share/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/share/doc-base/
-rw-r--r-- root/root 553 2022-01-24 12:40 ./usr/share/doc-base/minimap2.minimap2
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/share/doc/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/share/doc/minimap2/
-rw-r--r-- root/root 1602 2022-03-12 09:13 ./usr/share/doc/minimap2/changelog.Debian.gz
-rw-r--r-- root/root 3132 2022-01-24 12:40 ./usr/share/doc/minimap2/copyright
-rw-r--r-- root/root 268993 2022-03-12 09:13 ./usr/share/doc/minimap2/minimap2.pdf
-rw-r--r-- root/root 347 2022-01-24 12:40 ./usr/share/doc/minimap2/run-unit-test
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/share/doc/minimap2/test/
-rw-r--r-- root/root 5354 2021-12-26 20:14 ./usr/share/doc/minimap2/test/MT-human.fa.gz
-rw-r--r-- root/root 5367 2021-12-26 20:14 ./usr/share/doc/minimap2/test/MT-orang.fa.gz
-rw-r--r-- root/root 3540 2021-12-26 20:14 ./usr/share/doc/minimap2/test/q-inv.fa.gz
-rw-r--r-- root/root 44 2021-12-26 20:14 ./usr/share/doc/minimap2/test/q2.fa
-rw-r--r-- root/root 2525 2021-12-26 20:14 ./usr/share/doc/minimap2/test/t-inv.fa.gz
-rw-r--r-- root/root 79 2021-12-26 20:14 ./usr/share/doc/minimap2/test/t2.fa
-rw-r--r-- root/root 1095 2022-01-24 12:40 ./usr/share/doc/minimap2/test_script
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/share/man/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/share/man/man1/
-rw-r--r-- root/root 7695 2022-03-12 09:13 ./usr/share/man/man1/minimap2.1.gz
python3-mappy-dbgsym_2.24+dfsg-2_armhf.deb
------------------------------------------
new Debian package, version 2.0.
size 890724 bytes: control archive=656 bytes.
438 bytes, 12 lines control
305 bytes, 3 lines md5sums
Package: python3-mappy-dbgsym
Source: minimap2
Version: 2.24+dfsg-2
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 981
Depends: python3-mappy (= 2.24+dfsg-2)
Section: debug
Priority: optional
Description: debug symbols for python3-mappy
Build-Ids: c1ede5e171be65e1d91875cc17ebe448536b78bf c949b5d966a3b5118eb11a0f9804a6693746e214
drwxr-xr-x root/root 0 2022-03-12 09:13 ./
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/lib/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/lib/debug/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/lib/debug/.build-id/c1/
-rw-r--r-- root/root 479504 2022-03-12 09:13 ./usr/lib/debug/.build-id/c1/ede5e171be65e1d91875cc17ebe448536b78bf.debug
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/lib/debug/.build-id/c9/
-rw-r--r-- root/root 477812 2022-03-12 09:13 ./usr/lib/debug/.build-id/c9/49b5d966a3b5118eb11a0f9804a6693746e214.debug
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/lib/debug/.dwz/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/
-rw-r--r-- root/root 32448 2022-03-12 09:13 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/python3-mappy.debug
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/share/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/share/doc/
lrwxrwxrwx root/root 0 2022-03-12 09:13 ./usr/share/doc/python3-mappy-dbgsym -> python3-mappy
python3-mappy_2.24+dfsg-2_armhf.deb
-----------------------------------
new Debian package, version 2.0.
size 159760 bytes: control archive=1588 bytes.
1056 bytes, 22 lines control
859 bytes, 10 lines md5sums
263 bytes, 12 lines * postinst #!/bin/sh
412 bytes, 12 lines * prerm #!/bin/sh
Package: python3-mappy
Source: minimap2
Version: 2.24+dfsg-2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 700
Depends: libc6 (>= 2.29), zlib1g (>= 1:1.2.3.3), python3 (<< 3.11), python3 (>= 3.9~), python3:any
Section: python
Priority: optional
Homepage: https://github.com/lh3/minimap2
Description: Python3 interface minimap2
Minimap2 is a versatile sequence alignment program that aligns DNA or
mRNA sequences against a large reference database. Typical use cases
include: (1) mapping PacBio or Oxford Nanopore genomic reads to the
human genome; (2) finding overlaps between long reads with error rate up
to ~15%; (3) splice-aware alignment of PacBio Iso-Seq or Nanopore cDNA
or Direct RNA reads against a reference genome; (4) aligning Illumina
single- or paired-end reads; (5) assembly-to-assembly alignment; (6) full-
genome alignment between two closely related species with divergence
below ~15%.
.
This package contains the Python3 interface for using minimap2.
drwxr-xr-x root/root 0 2022-03-12 09:13 ./
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/bin/
-rwxr-xr-x root/root 1341 2022-03-12 09:13 ./usr/bin/minimap2.py
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/lib/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/lib/python3/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/lib/python3/dist-packages/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/lib/python3/dist-packages/mappy-2.24.egg-info/
-rw-r--r-- root/root 7131 2022-03-12 09:13 ./usr/lib/python3/dist-packages/mappy-2.24.egg-info/PKG-INFO
-rw-r--r-- root/root 1 2022-03-12 09:13 ./usr/lib/python3/dist-packages/mappy-2.24.egg-info/dependency_links.txt
-rw-r--r-- root/root 6 2022-03-12 09:13 ./usr/lib/python3/dist-packages/mappy-2.24.egg-info/top_level.txt
-rw-r--r-- root/root 338948 2022-03-12 09:13 ./usr/lib/python3/dist-packages/mappy.cpython-310-arm-linux-gnueabihf.so
-rw-r--r-- root/root 338948 2022-03-12 09:13 ./usr/lib/python3/dist-packages/mappy.cpython-39-arm-linux-gnueabihf.so
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/share/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/share/doc/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/share/doc/python3-mappy/
-rw-r--r-- root/root 1602 2022-03-12 09:13 ./usr/share/doc/python3-mappy/changelog.Debian.gz
-rw-r--r-- root/root 3132 2022-01-24 12:40 ./usr/share/doc/python3-mappy/copyright
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/share/lintian/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/share/lintian/overrides/
-rw-r--r-- root/root 122 2022-01-24 12:40 ./usr/share/lintian/overrides/python3-mappy
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/share/man/
drwxr-xr-x root/root 0 2022-03-12 09:13 ./usr/share/man/man1/
-rw-r--r-- root/root 460 2022-03-12 09:13 ./usr/share/man/man1/minimap2.py.1.gz
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 19888
Build-Time: 150
Distribution: bookworm-staging
Host Architecture: armhf
Install-Time: 1378
Job: minimap2_2.24+dfsg-2
Machine Architecture: armhf
Package: minimap2
Package-Time: 1547
Source-Version: 2.24+dfsg-2
Space: 19888
Status: successful
Version: 2.24+dfsg-2
--------------------------------------------------------------------------------
Finished at 2022-03-14T05:31:18Z
Build needed 00:25:47, 19888k disk space