r-bioc-rsubread →
2.4.2-1 →
armhf → 2021-05-08 19:23:45
sbuild (Debian sbuild) 0.78.1 (09 February 2019) on test2019
+==============================================================================+
| r-bioc-rsubread 2.4.2-1 (armhf) Sat, 08 May 2021 19:11:07 +0000 |
+==============================================================================+
Package: r-bioc-rsubread
Version: 2.4.2-1
Source Version: 2.4.2-1
Distribution: bullseye-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
Build Type: any
I: NOTICE: Log filtering will replace 'var/run/schroot/mount/bullseye-staging-armhf-sbuild-95e7c615-1a5f-4983-bb62-53e1a632c02e' with '<<CHROOT>>'
I: NOTICE: Log filtering will replace 'build/r-bioc-rsubread-cXsS8m/resolver-rz7aQK' with '<<RESOLVERDIR>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.0.1/private bullseye-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private bullseye-staging/main Sources [12.2 MB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf Packages [13.2 MB]
Fetched 25.5 MB in 13s (1961 kB/s)
Reading package lists...
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'r-bioc-rsubread' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/r-pkg-team/r-bioc-rsubread.git
Please use:
git clone https://salsa.debian.org/r-pkg-team/r-bioc-rsubread.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 10.9 MB of source archives.
Get:1 http://172.17.0.1/private bullseye-staging/main r-bioc-rsubread 2.4.2-1 (dsc) [2090 B]
Get:2 http://172.17.0.1/private bullseye-staging/main r-bioc-rsubread 2.4.2-1 (tar) [10.9 MB]
Get:3 http://172.17.0.1/private bullseye-staging/main r-bioc-rsubread 2.4.2-1 (diff) [3524 B]
Fetched 10.9 MB in 4s (2788 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/r-bioc-rsubread-cXsS8m/r-bioc-rsubread-2.4.2' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/r-bioc-rsubread-cXsS8m' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 13), dh-r, r-base-dev, r-cran-matrix, build-essential, fakeroot
Filtered Build-Depends: debhelper-compat (= 13), dh-r, r-base-dev, r-cran-matrix, build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<<RESOLVERDIR>>/apt_archive/sbuild-build-depends-main-dummy.deb'.
Ign:1 copy:/<<RESOLVERDIR>>/apt_archive ./ InRelease
Get:2 copy:/<<RESOLVERDIR>>/apt_archive ./ Release [957 B]
Ign:3 copy:/<<RESOLVERDIR>>/apt_archive ./ Release.gpg
Get:4 copy:/<<RESOLVERDIR>>/apt_archive ./ Sources [392 B]
Get:5 copy:/<<RESOLVERDIR>>/apt_archive ./ Packages [472 B]
Fetched 1821 B in 0s (47.8 kB/s)
Reading package lists...
Reading package lists...
Install main build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdextrautils ca-certificates
dctrl-tools debhelper dh-autoreconf dh-r dh-strip-nondeterminism dwz file
fontconfig fontconfig-config fonts-dejavu-core gettext gettext-base gfortran
gfortran-10 groff-base icu-devtools intltool-debian libalgorithm-c3-perl
libarchive-zip-perl libb-hooks-endofscope-perl libb-hooks-op-check-perl
libblas-dev libblas3 libbrotli1 libbsd0 libbz2-dev libcairo2
libclass-c3-perl libclass-load-perl libclass-load-xs-perl libcurl3-gnutls
libcurl4 libdata-optlist-perl libdatrie1 libdebhelper-perl libdeflate0
libdevel-callchecker-perl libdevel-globaldestruction-perl
libdevel-overloadinfo-perl libdevel-stacktrace-perl
libdist-checkconflicts-perl libdynaloader-functions-perl libelf1
libencode-locale-perl libeval-closure-perl libexpat1
libfile-stripnondeterminism-perl libfile-which-perl libfontconfig1
libfreetype6 libfribidi0 libgfortran-10-dev libgfortran5 libglib2.0-0
libgraphite2-3 libharfbuzz0b libhttp-date-perl libhttp-message-perl libice6
libicu-dev libicu67 libio-html-perl libjbig0 libjpeg-dev libjpeg62-turbo
libjpeg62-turbo-dev liblapack-dev liblapack3 liblwp-mediatypes-perl
liblzma-dev libmagic-mgc libmagic1 libmd0 libmodule-implementation-perl
libmodule-runtime-conflicts-perl libmodule-runtime-perl libmoose-perl
libmro-compat-perl libnamespace-clean-perl libncurses-dev libncurses5-dev
libncurses6 libnghttp2-14 libpackage-deprecationmanager-perl
libpackage-stash-perl libpackage-stash-xs-perl libpango-1.0-0
libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1
libparams-classify-perl libparams-util-perl libpcre16-3 libpcre2-16-0
libpcre2-32-0 libpcre2-dev libpcre2-posix2 libpcre3-dev libpcre32-3
libpcrecpp0v5 libpipeline1 libpixman-1-0 libpng-dev libpng16-16 libpsl5
libreadline-dev librtmp1 libsigsegv2 libsm6 libssh2-1 libsub-exporter-perl
libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl
libsub-name-perl libsub-override-perl libswitch-perl libtcl8.6 libthai-data
libthai0 libtiff5 libtimedate-perl libtk8.6 libtool libtry-tiny-perl
libuchardet0 liburi-perl libvariable-magic-perl libwebp6 libwww-curl-perl
libwww-curl-simple-perl libx11-6 libx11-data libxau6 libxcb-render0
libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxmuu1 libxrender1
libxss1 libxt6 m4 man-db openssl pkg-config po-debconf r-base-core
r-base-dev r-cran-lattice r-cran-matrix sensible-utils ucf unzip x11-common
xauth xdg-utils zip zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc debtags dh-make
postgresql-client-common gettext-doc libasprintf-dev libgettextpo-dev
gfortran-doc gfortran-10-doc libcoarrays-dev groff liblapack-doc icu-doc
liblzma-doc ncurses-doc libscalar-number-perl readline-doc tcl8.6 tk8.6
libtool-doc gcj-jdk libwww-perl libcurl4-gnutls-dev m4-doc apparmor less
www-browser libmail-box-perl elpa-ess r-doc-info | r-doc-pdf r-mathlib
r-base-html texlive-base texlive-latex-base texlive-plain-generic
texlive-fonts-recommended texlive-fonts-extra texlive-extra-utils
texlive-latex-recommended texlive-latex-extra texinfo
Recommended packages:
devscripts cme git-buildpackage curl | wget | lynx bzip2-doc
libclass-c3-xs-perl libdevel-lexalias-perl libarchive-cpio-perl
libglib2.0-data shared-mime-info xdg-user-dirs libclone-perl
libdevel-partialdump-perl libgpm2 libpng-tools publicsuffix libltdl-dev
libmail-sendmail-perl r-recommended r-doc-html libfile-mimeinfo-perl
libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdextrautils ca-certificates
dctrl-tools debhelper dh-autoreconf dh-r dh-strip-nondeterminism dwz file
fontconfig fontconfig-config fonts-dejavu-core gettext gettext-base gfortran
gfortran-10 groff-base icu-devtools intltool-debian libalgorithm-c3-perl
libarchive-zip-perl libb-hooks-endofscope-perl libb-hooks-op-check-perl
libblas-dev libblas3 libbrotli1 libbsd0 libbz2-dev libcairo2
libclass-c3-perl libclass-load-perl libclass-load-xs-perl libcurl3-gnutls
libcurl4 libdata-optlist-perl libdatrie1 libdebhelper-perl libdeflate0
libdevel-callchecker-perl libdevel-globaldestruction-perl
libdevel-overloadinfo-perl libdevel-stacktrace-perl
libdist-checkconflicts-perl libdynaloader-functions-perl libelf1
libencode-locale-perl libeval-closure-perl libexpat1
libfile-stripnondeterminism-perl libfile-which-perl libfontconfig1
libfreetype6 libfribidi0 libgfortran-10-dev libgfortran5 libglib2.0-0
libgraphite2-3 libharfbuzz0b libhttp-date-perl libhttp-message-perl libice6
libicu-dev libicu67 libio-html-perl libjbig0 libjpeg-dev libjpeg62-turbo
libjpeg62-turbo-dev liblapack-dev liblapack3 liblwp-mediatypes-perl
liblzma-dev libmagic-mgc libmagic1 libmd0 libmodule-implementation-perl
libmodule-runtime-conflicts-perl libmodule-runtime-perl libmoose-perl
libmro-compat-perl libnamespace-clean-perl libncurses-dev libncurses5-dev
libncurses6 libnghttp2-14 libpackage-deprecationmanager-perl
libpackage-stash-perl libpackage-stash-xs-perl libpango-1.0-0
libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1
libparams-classify-perl libparams-util-perl libpcre16-3 libpcre2-16-0
libpcre2-32-0 libpcre2-dev libpcre2-posix2 libpcre3-dev libpcre32-3
libpcrecpp0v5 libpipeline1 libpixman-1-0 libpng-dev libpng16-16 libpsl5
libreadline-dev librtmp1 libsigsegv2 libsm6 libssh2-1 libsub-exporter-perl
libsub-exporter-progressive-perl libsub-identify-perl libsub-install-perl
libsub-name-perl libsub-override-perl libswitch-perl libtcl8.6 libthai-data
libthai0 libtiff5 libtimedate-perl libtk8.6 libtool libtry-tiny-perl
libuchardet0 liburi-perl libvariable-magic-perl libwebp6 libwww-curl-perl
libwww-curl-simple-perl libx11-6 libx11-data libxau6 libxcb-render0
libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxmuu1 libxrender1
libxss1 libxt6 m4 man-db openssl pkg-config po-debconf r-base-core
r-base-dev r-cran-lattice r-cran-matrix sbuild-build-depends-main-dummy
sensible-utils ucf unzip x11-common xauth xdg-utils zip zlib1g-dev
0 upgraded, 170 newly installed, 0 to remove and 0 not upgraded.
Need to get 88.9 MB of archives.
After this operation, 253 MB of additional disk space will be used.
Get:1 copy:/<<RESOLVERDIR>>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [896 B]
Get:2 http://172.17.0.1/private bullseye-staging/main armhf bsdextrautils armhf 2.36.1-7 [137 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB]
Get:4 http://172.17.0.1/private bullseye-staging/main armhf groff-base armhf 1.22.4-6 [793 kB]
Get:5 http://172.17.0.1/private bullseye-staging/main armhf libpipeline1 armhf 1.5.3-1 [29.9 kB]
Get:6 http://172.17.0.1/private bullseye-staging/main armhf man-db armhf 2.9.4-2 [1307 kB]
Get:7 http://172.17.0.1/private bullseye-staging/main armhf sensible-utils all 0.0.14 [14.8 kB]
Get:8 http://172.17.0.1/private bullseye-staging/main armhf libmagic-mgc armhf 1:5.39-3 [273 kB]
Get:9 http://172.17.0.1/private bullseye-staging/main armhf libmagic1 armhf 1:5.39-3 [117 kB]
Get:10 http://172.17.0.1/private bullseye-staging/main armhf file armhf 1:5.39-3 [68.0 kB]
Get:11 http://172.17.0.1/private bullseye-staging/main armhf gettext-base armhf 0.21-4 [171 kB]
Get:12 http://172.17.0.1/private bullseye-staging/main armhf ucf all 3.0043 [74.0 kB]
Get:13 http://172.17.0.1/private bullseye-staging/main armhf libsigsegv2 armhf 2.13-1 [34.3 kB]
Get:14 http://172.17.0.1/private bullseye-staging/main armhf m4 armhf 1.4.18-5 [186 kB]
Get:15 http://172.17.0.1/private bullseye-staging/main armhf autoconf all 2.69-14 [313 kB]
Get:16 http://172.17.0.1/private bullseye-staging/main armhf autotools-dev all 20180224.1+nmu1 [77.1 kB]
Get:17 http://172.17.0.1/private bullseye-staging/main armhf automake all 1:1.16.3-2 [814 kB]
Get:18 http://172.17.0.1/private bullseye-staging/main armhf autopoint all 0.21-4 [510 kB]
Get:19 http://172.17.0.1/private bullseye-staging/main armhf openssl armhf 1.1.1k-1 [814 kB]
Get:20 http://172.17.0.1/private bullseye-staging/main armhf ca-certificates all 20210119 [158 kB]
Get:21 http://172.17.0.1/private bullseye-staging/main armhf dctrl-tools armhf 2.24-3 [94.2 kB]
Get:22 http://172.17.0.1/private bullseye-staging/main armhf libdebhelper-perl all 13.3.4 [189 kB]
Get:23 http://172.17.0.1/private bullseye-staging/main armhf libtool all 2.4.6-15 [513 kB]
Get:24 http://172.17.0.1/private bullseye-staging/main armhf dh-autoreconf all 20 [17.1 kB]
Get:25 http://172.17.0.1/private bullseye-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:26 http://172.17.0.1/private bullseye-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:27 http://172.17.0.1/private bullseye-staging/main armhf libfile-stripnondeterminism-perl all 1.11.0-1 [25.6 kB]
Get:28 http://172.17.0.1/private bullseye-staging/main armhf dh-strip-nondeterminism all 1.11.0-1 [15.3 kB]
Get:29 http://172.17.0.1/private bullseye-staging/main armhf libelf1 armhf 0.183-1 [161 kB]
Get:30 http://172.17.0.1/private bullseye-staging/main armhf dwz armhf 0.13+20210201-1 [164 kB]
Get:31 http://172.17.0.1/private bullseye-staging/main armhf libicu67 armhf 67.1-6 [8289 kB]
Get:32 http://172.17.0.1/private bullseye-staging/main armhf libxml2 armhf 2.9.10+dfsg-6.3 [580 kB]
Get:33 http://172.17.0.1/private bullseye-staging/main armhf gettext armhf 0.21-4 [1215 kB]
Get:34 http://172.17.0.1/private bullseye-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:35 http://172.17.0.1/private bullseye-staging/main armhf po-debconf all 1.0.21+nmu1 [248 kB]
Get:36 http://172.17.0.1/private bullseye-staging/main armhf debhelper all 13.3.4 [1049 kB]
Get:37 http://172.17.0.1/private bullseye-staging/main armhf zip armhf 3.0-12 [209 kB]
Get:38 http://172.17.0.1/private bullseye-staging/main armhf unzip armhf 6.0-26 [151 kB]
Get:39 http://172.17.0.1/private bullseye-staging/main armhf libpaper1 armhf 1.1.28 [20.5 kB]
Get:40 http://172.17.0.1/private bullseye-staging/main armhf libpaper-utils armhf 1.1.28 [17.7 kB]
Get:41 http://172.17.0.1/private bullseye-staging/main armhf xdg-utils all 1.1.3-4.1 [75.5 kB]
Get:42 http://172.17.0.1/private bullseye-staging/main armhf libblas3 armhf 3.9.0-3 [108 kB]
Get:43 http://172.17.0.1/private bullseye-staging/main armhf libexpat1 armhf 2.2.10-2 [73.4 kB]
Get:44 http://172.17.0.1/private bullseye-staging/main armhf libbrotli1 armhf 1.0.9-2+b1 [261 kB]
Get:45 http://172.17.0.1/private bullseye-staging/main armhf libpng16-16 armhf 1.6.37-3 [276 kB]
Get:46 http://172.17.0.1/private bullseye-staging/main armhf libfreetype6 armhf 2.10.4+dfsg-1 [353 kB]
Get:47 http://172.17.0.1/private bullseye-staging/main armhf fonts-dejavu-core all 2.37-2 [1069 kB]
Get:48 http://172.17.0.1/private bullseye-staging/main armhf fontconfig-config all 2.13.1-4.2 [281 kB]
Get:49 http://172.17.0.1/private bullseye-staging/main armhf libfontconfig1 armhf 2.13.1-4.2 [328 kB]
Get:50 http://172.17.0.1/private bullseye-staging/main armhf libpixman-1-0 armhf 0.40.0-1 [463 kB]
Get:51 http://172.17.0.1/private bullseye-staging/main armhf libxau6 armhf 1:1.0.9-1 [19.1 kB]
Get:52 http://172.17.0.1/private bullseye-staging/main armhf libmd0 armhf 1.0.3-3 [27.2 kB]
Get:53 http://172.17.0.1/private bullseye-staging/main armhf libbsd0 armhf 0.11.3-1 [103 kB]
Get:54 http://172.17.0.1/private bullseye-staging/main armhf libxdmcp6 armhf 1:1.1.2-3 [25.0 kB]
Get:55 http://172.17.0.1/private bullseye-staging/main armhf libxcb1 armhf 1.14-3 [136 kB]
Get:56 http://172.17.0.1/private bullseye-staging/main armhf libx11-data all 2:1.7.0-2 [310 kB]
Get:57 http://172.17.0.1/private bullseye-staging/main armhf libx11-6 armhf 2:1.7.0-2 [706 kB]
Get:58 http://172.17.0.1/private bullseye-staging/main armhf libxcb-render0 armhf 1.14-3 [110 kB]
Get:59 http://172.17.0.1/private bullseye-staging/main armhf libxcb-shm0 armhf 1.14-3 [101 kB]
Get:60 http://172.17.0.1/private bullseye-staging/main armhf libxext6 armhf 2:1.3.3-1.1 [47.8 kB]
Get:61 http://172.17.0.1/private bullseye-staging/main armhf libxrender1 armhf 1:0.9.10-1 [29.9 kB]
Get:62 http://172.17.0.1/private bullseye-staging/main armhf libcairo2 armhf 1.16.0-5 [602 kB]
Get:63 http://172.17.0.1/private bullseye-staging/main armhf libnghttp2-14 armhf 1.43.0-1 [65.3 kB]
Get:64 http://172.17.0.1/private bullseye-staging/main armhf libpsl5 armhf 0.21.0-1.2 [56.2 kB]
Get:65 http://172.17.0.1/private bullseye-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [54.2 kB]
Get:66 http://172.17.0.1/private bullseye-staging/main armhf libssh2-1 armhf 1.9.0-2 [141 kB]
Get:67 http://172.17.0.1/private bullseye-staging/main armhf libcurl4 armhf 7.74.0-1.2 [305 kB]
Get:68 http://172.17.0.1/private bullseye-staging/main armhf libglib2.0-0 armhf 2.66.8-1 [1183 kB]
Get:69 http://172.17.0.1/private bullseye-staging/main armhf libjpeg62-turbo armhf 1:2.0.6-4 [122 kB]
Get:70 http://172.17.0.1/private bullseye-staging/main armhf libgfortran5 armhf 10.2.1-6+rpi1 [232 kB]
Get:71 http://172.17.0.1/private bullseye-staging/main armhf liblapack3 armhf 3.9.0-3 [1597 kB]
Get:72 http://172.17.0.1/private bullseye-staging/main armhf fontconfig armhf 2.13.1-4.2 [416 kB]
Get:73 http://172.17.0.1/private bullseye-staging/main armhf libfribidi0 armhf 1.0.8-2 [63.5 kB]
Get:74 http://172.17.0.1/private bullseye-staging/main armhf libgraphite2-3 armhf 1.3.14-1 [70.3 kB]
Get:75 http://172.17.0.1/private bullseye-staging/main armhf libharfbuzz0b armhf 2.7.4-1 [1422 kB]
Get:76 http://172.17.0.1/private bullseye-staging/main armhf libthai-data all 0.1.28-3 [170 kB]
Get:77 http://172.17.0.1/private bullseye-staging/main armhf libdatrie1 armhf 0.2.13-1+b1 [39.7 kB]
Get:78 http://172.17.0.1/private bullseye-staging/main armhf libthai0 armhf 0.1.28-3 [51.0 kB]
Get:79 http://172.17.0.1/private bullseye-staging/main armhf libpango-1.0-0 armhf 1.46.2-3 [172 kB]
Get:80 http://172.17.0.1/private bullseye-staging/main armhf libpangoft2-1.0-0 armhf 1.46.2-3 [55.7 kB]
Get:81 http://172.17.0.1/private bullseye-staging/main armhf libpangocairo-1.0-0 armhf 1.46.2-3 [46.7 kB]
Get:82 http://172.17.0.1/private bullseye-staging/main armhf libtcl8.6 armhf 8.6.11+dfsg-1 [894 kB]
Get:83 http://172.17.0.1/private bullseye-staging/main armhf libdeflate0 armhf 1.7-1 [44.0 kB]
Get:84 http://172.17.0.1/private bullseye-staging/main armhf libjbig0 armhf 2.1-3.1+b2 [27.6 kB]
Get:85 http://172.17.0.1/private bullseye-staging/main armhf libwebp6 armhf 0.6.1-2 [228 kB]
Get:86 http://172.17.0.1/private bullseye-staging/main armhf libtiff5 armhf 4.2.0-1 [268 kB]
Get:87 http://172.17.0.1/private bullseye-staging/main armhf libxft2 armhf 2.3.2-2 [49.3 kB]
Get:88 http://172.17.0.1/private bullseye-staging/main armhf x11-common all 1:7.7+22 [252 kB]
Get:89 http://172.17.0.1/private bullseye-staging/main armhf libxss1 armhf 1:1.2.3-1 [17.3 kB]
Get:90 http://172.17.0.1/private bullseye-staging/main armhf libtk8.6 armhf 8.6.11-2 [681 kB]
Get:91 http://172.17.0.1/private bullseye-staging/main armhf libice6 armhf 2:1.0.10-1 [51.7 kB]
Get:92 http://172.17.0.1/private bullseye-staging/main armhf libsm6 armhf 2:1.2.3-1 [32.9 kB]
Get:93 http://172.17.0.1/private bullseye-staging/main armhf libxt6 armhf 1:1.2.0-1 [159 kB]
Get:94 http://172.17.0.1/private bullseye-staging/main armhf r-base-core armhf 4.0.4-1 [24.8 MB]
Get:95 http://172.17.0.1/private bullseye-staging/main armhf libgfortran-10-dev armhf 10.2.1-6+rpi1 [278 kB]
Get:96 http://172.17.0.1/private bullseye-staging/main armhf gfortran-10 armhf 10.2.1-6+rpi1 [7195 kB]
Get:97 http://172.17.0.1/private bullseye-staging/main armhf gfortran armhf 4:10.2.1-1+rpi1 [1428 B]
Get:98 http://172.17.0.1/private bullseye-staging/main armhf libblas-dev armhf 3.9.0-3 [113 kB]
Get:99 http://172.17.0.1/private bullseye-staging/main armhf liblapack-dev armhf 3.9.0-3 [2980 kB]
Get:100 http://172.17.0.1/private bullseye-staging/main armhf libncurses6 armhf 6.2+20201114-2 [79.9 kB]
Get:101 http://172.17.0.1/private bullseye-staging/main armhf libncurses-dev armhf 6.2+20201114-2 [288 kB]
Get:102 http://172.17.0.1/private bullseye-staging/main armhf libncurses5-dev armhf 6.2+20201114-2 [936 B]
Get:103 http://172.17.0.1/private bullseye-staging/main armhf libreadline-dev armhf 8.1-1 [121 kB]
Get:104 http://172.17.0.1/private bullseye-staging/main armhf libjpeg62-turbo-dev armhf 1:2.0.6-4 [240 kB]
Get:105 http://172.17.0.1/private bullseye-staging/main armhf libjpeg-dev armhf 1:2.0.6-4 [67.8 kB]
Get:106 http://172.17.0.1/private bullseye-staging/main armhf libpcre2-16-0 armhf 10.36-2 [197 kB]
Get:107 http://172.17.0.1/private bullseye-staging/main armhf libpcre2-32-0 armhf 10.36-2 [187 kB]
Get:108 http://172.17.0.1/private bullseye-staging/main armhf libpcre2-posix2 armhf 10.36-2 [48.7 kB]
Get:109 http://172.17.0.1/private bullseye-staging/main armhf libpcre2-dev armhf 10.36-2 [626 kB]
Get:110 http://172.17.0.1/private bullseye-staging/main armhf libpcre16-3 armhf 2:8.39-13 [235 kB]
Get:111 http://172.17.0.1/private bullseye-staging/main armhf libpcre32-3 armhf 2:8.39-13 [228 kB]
Get:112 http://172.17.0.1/private bullseye-staging/main armhf libpcrecpp0v5 armhf 2:8.39-13 [150 kB]
Get:113 http://172.17.0.1/private bullseye-staging/main armhf libpcre3-dev armhf 2:8.39-13 [566 kB]
Get:114 http://172.17.0.1/private bullseye-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [184 kB]
Get:115 http://172.17.0.1/private bullseye-staging/main armhf libpng-dev armhf 1.6.37-3 [277 kB]
Get:116 http://172.17.0.1/private bullseye-staging/main armhf libbz2-dev armhf 1.0.8-4 [28.0 kB]
Get:117 http://172.17.0.1/private bullseye-staging/main armhf liblzma-dev armhf 5.2.5-2 [219 kB]
Get:118 http://172.17.0.1/private bullseye-staging/main armhf icu-devtools armhf 67.1-6 [172 kB]
Get:119 http://172.17.0.1/private bullseye-staging/main armhf libicu-dev armhf 67.1-6 [9229 kB]
Get:120 http://172.17.0.1/private bullseye-staging/main armhf libxmuu1 armhf 2:1.1.2-2+b3 [23.4 kB]
Get:121 http://172.17.0.1/private bullseye-staging/main armhf xauth armhf 1:1.1-1 [36.6 kB]
Get:122 http://172.17.0.1/private bullseye-staging/main armhf pkg-config armhf 0.29.2-1 [61.5 kB]
Get:123 http://172.17.0.1/private bullseye-staging/main armhf r-base-dev all 4.0.4-1 [4484 B]
Get:124 http://172.17.0.1/private bullseye-staging/main armhf libfile-which-perl all 1.23-1 [16.6 kB]
Get:125 http://172.17.0.1/private bullseye-staging/main armhf libswitch-perl all 2.17-2.1 [20.0 kB]
Get:126 http://172.17.0.1/private bullseye-staging/main armhf libencode-locale-perl all 1.05-1.1 [13.2 kB]
Get:127 http://172.17.0.1/private bullseye-staging/main armhf libtimedate-perl all 2.3300-2 [39.3 kB]
Get:128 http://172.17.0.1/private bullseye-staging/main armhf libhttp-date-perl all 6.05-1 [10.4 kB]
Get:129 http://172.17.0.1/private bullseye-staging/main armhf libio-html-perl all 1.004-2 [16.1 kB]
Get:130 http://172.17.0.1/private bullseye-staging/main armhf liblwp-mediatypes-perl all 6.04-1 [19.9 kB]
Get:131 http://172.17.0.1/private bullseye-staging/main armhf liburi-perl all 5.08-1 [90.6 kB]
Get:132 http://172.17.0.1/private bullseye-staging/main armhf libhttp-message-perl all 6.28-1 [79.6 kB]
Get:133 http://172.17.0.1/private bullseye-staging/main armhf libparams-util-perl armhf 1.102-1+b1 [24.6 kB]
Get:134 http://172.17.0.1/private bullseye-staging/main armhf libsub-install-perl all 0.928-1.1 [10.8 kB]
Get:135 http://172.17.0.1/private bullseye-staging/main armhf libdata-optlist-perl all 0.110-1.1 [10.8 kB]
Get:136 http://172.17.0.1/private bullseye-staging/main armhf libb-hooks-op-check-perl armhf 0.22-1+b4 [11.0 kB]
Get:137 http://172.17.0.1/private bullseye-staging/main armhf libdynaloader-functions-perl all 0.003-1.1 [12.7 kB]
Get:138 http://172.17.0.1/private bullseye-staging/main armhf libdevel-callchecker-perl armhf 0.008-1+b2 [15.7 kB]
Get:139 http://172.17.0.1/private bullseye-staging/main armhf libparams-classify-perl armhf 0.015-1+b3 [24.6 kB]
Get:140 http://172.17.0.1/private bullseye-staging/main armhf libmodule-runtime-perl all 0.016-1 [19.4 kB]
Get:141 http://172.17.0.1/private bullseye-staging/main armhf libtry-tiny-perl all 0.30-1 [23.3 kB]
Get:142 http://172.17.0.1/private bullseye-staging/main armhf libmodule-implementation-perl all 0.09-1.1 [12.4 kB]
Get:143 http://172.17.0.1/private bullseye-staging/main armhf libpackage-stash-perl all 0.39-1 [21.9 kB]
Get:144 http://172.17.0.1/private bullseye-staging/main armhf libclass-load-perl all 0.25-1 [16.1 kB]
Get:145 http://172.17.0.1/private bullseye-staging/main armhf libclass-load-xs-perl armhf 0.10-1+b4 [14.3 kB]
Get:146 http://172.17.0.1/private bullseye-staging/main armhf libsub-exporter-progressive-perl all 0.001013-1 [7588 B]
Get:147 http://172.17.0.1/private bullseye-staging/main armhf libdevel-globaldestruction-perl all 0.14-1.1 [8312 B]
Get:148 http://172.17.0.1/private bullseye-staging/main armhf libalgorithm-c3-perl all 0.11-1 [11.7 kB]
Get:149 http://172.17.0.1/private bullseye-staging/main armhf libclass-c3-perl all 0.35-1 [22.9 kB]
Get:150 http://172.17.0.1/private bullseye-staging/main armhf libmro-compat-perl all 0.13-1 [12.2 kB]
Get:151 http://172.17.0.1/private bullseye-staging/main armhf libsub-identify-perl armhf 0.14-1+b3 [11.6 kB]
Get:152 http://172.17.0.1/private bullseye-staging/main armhf libdevel-overloadinfo-perl all 0.005-1 [7212 B]
Get:153 http://172.17.0.1/private bullseye-staging/main armhf libdevel-stacktrace-perl all 2.0400-1 [28.6 kB]
Get:154 http://172.17.0.1/private bullseye-staging/main armhf libsub-exporter-perl all 0.987-1 [47.2 kB]
Get:155 http://172.17.0.1/private bullseye-staging/main armhf libeval-closure-perl all 0.14-1 [11.5 kB]
Get:156 http://172.17.0.1/private bullseye-staging/main armhf libdist-checkconflicts-perl all 0.11-1.1 [10.2 kB]
Get:157 http://172.17.0.1/private bullseye-staging/main armhf libmodule-runtime-conflicts-perl all 0.003-1.1 [7156 B]
Get:158 http://172.17.0.1/private bullseye-staging/main armhf libsub-name-perl armhf 0.26-1+b1 [13.2 kB]
Get:159 http://172.17.0.1/private bullseye-staging/main armhf libpackage-deprecationmanager-perl all 0.17-1.1 [16.6 kB]
Get:160 http://172.17.0.1/private bullseye-staging/main armhf libpackage-stash-xs-perl armhf 0.29-1+b2 [18.5 kB]
Get:161 http://172.17.0.1/private bullseye-staging/main armhf libmoose-perl armhf 2.2014-2 [802 kB]
Get:162 http://172.17.0.1/private bullseye-staging/main armhf libvariable-magic-perl armhf 0.62-1+b3 [43.0 kB]
Get:163 http://172.17.0.1/private bullseye-staging/main armhf libb-hooks-endofscope-perl all 0.24-1.1 [18.9 kB]
Get:164 http://172.17.0.1/private bullseye-staging/main armhf libnamespace-clean-perl all 0.27-1 [17.3 kB]
Get:165 http://172.17.0.1/private bullseye-staging/main armhf libcurl3-gnutls armhf 7.74.0-1.2 [302 kB]
Get:166 http://172.17.0.1/private bullseye-staging/main armhf libwww-curl-perl armhf 4.17-7+b1 [58.9 kB]
Get:167 http://172.17.0.1/private bullseye-staging/main armhf libwww-curl-simple-perl all 0.100191-2 [12.5 kB]
Get:168 http://172.17.0.1/private bullseye-staging/main armhf dh-r all 20210303 [41.8 kB]
Get:169 http://172.17.0.1/private bullseye-staging/main armhf r-cran-lattice armhf 0.20-41-1+b1 [1167 kB]
Get:170 http://172.17.0.1/private bullseye-staging/main armhf r-cran-matrix armhf 1.3-2-1 [3565 kB]
debconf: delaying package configuration, since apt-utils is not installed
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invoke-rc.d: could not determine current runlevel
All runlevel operations denied by policy
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Setting up libgfortran5:armhf (10.2.1-6+rpi1) ...
Setting up libsub-exporter-progressive-perl (0.001013-1) ...
Setting up libtimedate-perl (2.3300-2) ...
Setting up liblzma-dev:armhf (5.2.5-2) ...
Setting up libsub-name-perl (0.26-1+b1) ...
Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-2) ...
Setting up libmd0:armhf (1.0.3-3) ...
Setting up sensible-utils (0.0.14) ...
Setting up libuchardet0:armhf (0.0.7-1) ...
Setting up libsub-override-perl (0.09-2) ...
Setting up libthai-data (0.1.28-3) ...
Setting up libgfortran-10-dev:armhf (10.2.1-6+rpi1) ...
Setting up libdevel-globaldestruction-perl (0.14-1.1) ...
Setting up libssh2-1:armhf (1.9.0-2) ...
Setting up libdevel-stacktrace-perl (2.0400-1) ...
Setting up libtiff5:armhf (4.2.0-1) ...
Setting up openssl (1.1.1k-1) ...
Setting up libbsd0:armhf (0.11.3-1) ...
Setting up libelf1:armhf (0.183-1) ...
Setting up libicu-dev:armhf (67.1-6) ...
Setting up libxml2:armhf (2.9.10+dfsg-6.3) ...
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 liburi-perl (5.08-1) ...
Setting up libblas-dev:armhf (3.9.0-3) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so to provide /usr/lib/arm-linux-gnueabihf/libblas.so (libblas.so-arm-linux-gnueabihf) in auto mode
Setting up dctrl-tools (2.24-3) ...
Setting up libbz2-dev:armhf (1.0.8-4) ...
Setting up libfile-stripnondeterminism-perl (1.11.0-1) ...
Setting up libice6:armhf (2:1.0.10-1) ...
Setting up libhttp-date-perl (6.05-1) ...
Setting up libxdmcp6:armhf (1:1.1.2-3) ...
Setting up liblapack3:armhf (3.9.0-3) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode
Setting up libncurses-dev:armhf (6.2+20201114-2) ...
Setting up libxcb1:armhf (1.14-3) ...
Setting up gettext (0.21-4) ...
Setting up libpcre2-dev:armhf (10.36-2) ...
Setting up libtool (2.4.6-15) ...
Setting up libxcb-render0:armhf (1.14-3) ...
Setting up libpcre3-dev:armhf (2:8.39-13) ...
Setting up libpng-dev:armhf (1.6.37-3) ...
Setting up libjpeg-dev:armhf (1:2.0.6-4) ...
Setting up m4 (1.4.18-5) ...
Setting up libcurl3-gnutls:armhf (7.74.0-1.2) ...
Setting up libxcb-shm0:armhf (1.14-3) ...
Setting up libclass-c3-perl (0.35-1) ...
Setting up libreadline-dev:armhf (8.1-1) ...
Setting up libdevel-callchecker-perl (0.008-1+b2) ...
Setting up intltool-debian (0.35.0+20060710.5) ...
Setting up libthai0:armhf (0.1.28-3) ...
Setting up ca-certificates (20210119) ...
Updating certificates in /etc/ssl/certs...
129 added, 0 removed; done.
Setting up libfreetype6:armhf (2.10.4+dfsg-1) ...
Setting up liblapack-dev:armhf (3.9.0-3) ...
update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so to provide /usr/lib/arm-linux-gnueabihf/liblapack.so (liblapack.so-arm-linux-gnueabihf) in auto mode
Setting up gfortran-10 (10.2.1-6+rpi1) ...
Setting up libdata-optlist-perl (0.110-1.1) ...
Setting up ucf (3.0043) ...
Setting up autoconf (2.69-14) ...
Setting up dh-strip-nondeterminism (1.11.0-1) ...
Setting up dwz (0.13+20210201-1) ...
Setting up groff-base (1.22.4-6) ...
Setting up libncurses5-dev:armhf (6.2+20201114-2) ...
Setting up libcurl4:armhf (7.74.0-1.2) ...
Setting up libx11-6:armhf (2:1.7.0-2) ...
Setting up libharfbuzz0b:armhf (2.7.4-1) ...
Setting up libmro-compat-perl (0.13-1) ...
Setting up libsm6:armhf (2:1.2.3-1) ...
Setting up libxmuu1:armhf (2:1.1.2-2+b3) ...
Setting up libsub-exporter-perl (0.987-1) ...
Setting up libhttp-message-perl (6.28-1) ...
Setting up libeval-closure-perl (0.14-1) ...
Setting up automake (1:1.16.3-2) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
Setting up libpaper1:armhf (1.1.28) ...
Creating config file /etc/papersize with new version
Setting up libxrender1:armhf (1:0.9.10-1) ...
Setting up fontconfig-config (2.13.1-4.2) ...
Setting up po-debconf (1.0.21+nmu1) ...
Setting up libparams-classify-perl (0.015-1+b3) ...
Setting up libxext6:armhf (2:1.3.3-1.1) ...
Setting up libwww-curl-perl (4.17-7+b1) ...
Setting up libpaper-utils (1.1.28) ...
Setting up man-db (2.9.4-2) ...
Not building database; man-db/auto-update is not 'true'.
Setting up gfortran (4:10.2.1-1+rpi1) ...
update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode
update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode
Setting up dh-autoreconf (20) ...
Setting up libmodule-runtime-perl (0.016-1) ...
Setting up libdist-checkconflicts-perl (0.11-1.1) ...
Setting up libxt6:armhf (1:1.2.0-1) ...
Setting up xauth (1:1.1-1) ...
Setting up libxss1:armhf (1:1.2.3-1) ...
Setting up libfontconfig1:armhf (2.13.1-4.2) ...
Setting up fontconfig (2.13.1-4.2) ...
Regenerating fonts cache... done.
Setting up libxft2:armhf (2.3.2-2) ...
Setting up libmodule-implementation-perl (0.09-1.1) ...
Setting up libpackage-stash-perl (0.39-1) ...
Setting up libtk8.6:armhf (8.6.11-2) ...
Setting up libpango-1.0-0:armhf (1.46.2-3) ...
Setting up debhelper (13.3.4) ...
Setting up libmodule-runtime-conflicts-perl (0.003-1.1) ...
Setting up libcairo2:armhf (1.16.0-5) ...
Setting up libclass-load-perl (0.25-1) ...
Setting up libpackage-deprecationmanager-perl (0.17-1.1) ...
Setting up libdevel-overloadinfo-perl (0.005-1) ...
Setting up libclass-load-xs-perl (0.10-1+b4) ...
Setting up libpangoft2-1.0-0:armhf (1.46.2-3) ...
Setting up libb-hooks-endofscope-perl (0.24-1.1) ...
Setting up libpangocairo-1.0-0:armhf (1.46.2-3) ...
Setting up libmoose-perl (2.2014-2) ...
Setting up r-base-core (4.0.4-1) ...
Creating config file /etc/R/Renviron with new version
Setting up libnamespace-clean-perl (0.27-1) ...
Setting up r-cran-lattice (0.20-41-1+b1) ...
Setting up r-base-dev (4.0.4-1) ...
Setting up libwww-curl-simple-perl (0.100191-2) ...
Setting up r-cran-matrix (1.3-2-1) ...
Setting up dh-r (20210303) ...
Setting up sbuild-build-depends-main-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.31-11+rpi1) ...
Processing triggers for ca-certificates (20210119) ...
Updating certificates in /etc/ssl/certs...
0 added, 0 removed; done.
Running hooks in /etc/ca-certificates/update.d...
done.
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any)
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.19.20-v7+ #1 SMP Mon Mar 18 11:37:02 GMT 2019 armhf (armv7l)
Toolchain package versions: binutils_2.35.2-2+rpi1 dpkg-dev_1.20.9+rpi1 g++-10_10.2.1-6+rpi1 gcc-10_10.2.1-6+rpi1 libc6-dev_2.31-11+rpi1 libstdc++-10-dev_10.2.1-6+rpi1 libstdc++6_10.2.1-6+rpi1 linux-libc-dev_5.10.28-1+rpi1
Package versions: adduser_3.118 apt_2.2.3 autoconf_2.69-14 automake_1:1.16.3-2 autopoint_0.21-4 autotools-dev_20180224.1+nmu1 base-files_11+rpi1 base-passwd_3.5.49 bash_5.1-2 binutils_2.35.2-2+rpi1 binutils-arm-linux-gnueabihf_2.35.2-2+rpi1 binutils-common_2.35.2-2+rpi1 bsdextrautils_2.36.1-7 bsdutils_1:2.36.1-7 build-essential_12.9 bzip2_1.0.8-4 ca-certificates_20210119 coreutils_8.32-4 cpp_4:10.2.1-1+rpi1 cpp-10_10.2.1-6+rpi1 dash_0.5.11+git20200708+dd9ef66-5 dctrl-tools_2.24-3 debconf_1.5.75 debhelper_13.3.4 debianutils_4.11.2 dh-autoreconf_20 dh-r_20210303 dh-strip-nondeterminism_1.11.0-1 diffutils_1:3.7-5 dirmngr_2.2.27-2 dpkg_1.20.9+rpi1 dpkg-dev_1.20.9+rpi1 dwz_0.13+20210201-1 e2fsprogs_1.46.2-1 fakeroot_1.25.3-1.1 file_1:5.39-3 findutils_4.8.0-1 fontconfig_2.13.1-4.2 fontconfig-config_2.13.1-4.2 fonts-dejavu-core_2.37-2 g++_4:10.2.1-1+rpi1 g++-10_10.2.1-6+rpi1 gcc_4:10.2.1-1+rpi1 gcc-10_10.2.1-6+rpi1 gcc-10-base_10.2.1-6+rpi1 gcc-7-base_7.5.0-6+rpi1+b2 gcc-8-base_8.4.0-7+rpi1 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+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 3.0 (quilt)
Source: r-bioc-rsubread
Binary: r-bioc-rsubread
Architecture: any
Version: 2.4.2-1
Maintainer: Debian R Packages Maintainers <r-pkg-team@alioth-lists.debian.net>
Uploaders: Steffen Moeller <moeller@debian.org>
Homepage: https://bioconductor.org/packages/Rsubread/
Standards-Version: 4.5.1
Vcs-Browser: https://salsa.debian.org/r-pkg-team/r-bioc-rsubread
Vcs-Git: https://salsa.debian.org/r-pkg-team/r-bioc-rsubread.git
Testsuite: autopkgtest-pkg-r
Build-Depends: debhelper-compat (= 13), dh-r, r-base-dev, r-cran-matrix
Package-List:
r-bioc-rsubread deb gnu-r optional arch=any
Checksums-Sha1:
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5c25179b108468352a528d4456524260 10851131 r-bioc-rsubread_2.4.2.orig.tar.gz
1a9f53cb6ccf02ff179b29803d14514f 3524 r-bioc-rsubread_2.4.2-1.debian.tar.xz
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gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/tmp/dpkg-verify-sig.sAvFfNGE/trustedkeys.kbx': General error
gpgv: Signature made Fri Nov 27 10:43:38 2020 UTC
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./r-bioc-rsubread_2.4.2-1.dsc
dpkg-source: info: extracting r-bioc-rsubread in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking r-bioc-rsubread_2.4.2.orig.tar.gz
dpkg-source: info: unpacking r-bioc-rsubread_2.4.2-1.debian.tar.xz
Check disk space
----------------
Sufficient free space for build
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DBUS_SESSION_BUS_ADDRESS=unix:path=/run/user/112/bus
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
INVOCATION_ID=28324993283040c09eb51e44c2225ece
JOURNAL_STREAM=8:20070
LANG=en_GB.UTF-8
LC_ALL=C.UTF-8
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
PWD=/
SCHROOT_ALIAS_NAME=bullseye-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bullseye-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=117
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bullseye-staging-armhf-sbuild-95e7c615-1a5f-4983-bb62-53e1a632c02e
SCHROOT_UID=112
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
XDG_RUNTIME_DIR=/run/user/112
XDG_SESSION_CLASS=background
XDG_SESSION_ID=c19593
XDG_SESSION_TYPE=unspecified
dpkg-buildpackage
-----------------
Command: dpkg-buildpackage -us -uc -mRaspbian pi4 based autobuilder <root@raspbian.org> -B -rfakeroot
dpkg-buildpackage: info: source package r-bioc-rsubread
dpkg-buildpackage: info: source version 2.4.2-1
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
debian/rules clean
dh clean --buildsystem R
dh_auto_clean -O--buildsystem=R
dh_autoreconf_clean -O--buildsystem=R
dh_clean -O--buildsystem=R
debian/rules binary-arch
dh binary-arch --buildsystem R
dh_update_autotools_config -a -O--buildsystem=R
dh_autoreconf -a -O--buildsystem=R
dh_auto_configure -a -O--buildsystem=R
dh_auto_build -a -O--buildsystem=R
dh_auto_test -a -O--buildsystem=R
create-stamp debian/debhelper-build-stamp
dh_testroot -a -O--buildsystem=R
dh_prep -a -O--buildsystem=R
dh_auto_install -a -O--buildsystem=R
I: R Package: Rsubread Version: 2.4.2
I: Building using R version 4.0.4-1
I: R API version: r-api-4.0
I: Using built-time from d/changelog: Fri, 27 Nov 2020 11:36:46 +0100
mkdir -p /<<PKGBUILDDIR>>/debian/r-bioc-rsubread/usr/lib/R/site-library
R CMD INSTALL -l /<<PKGBUILDDIR>>/debian/r-bioc-rsubread/usr/lib/R/site-library --clean . "--built-timestamp='Fri, 27 Nov 2020 11:36:46 +0100'"
* installing *source* package ‘Rsubread’ ...
** using staged installation
@@@@@ The operating system is Linux.
** libs
make[1]: Entering directory '/<<PKGBUILDDIR>>/src'
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 2.4.2\"" -fpic -g -O2 -ffile-prefix-map=/build/r-base-Lrpv4f/r-base-4.0.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c HelperFunctions.c -o HelperFunctions.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 2.4.2\"" -fpic -g -O2 -ffile-prefix-map=/build/r-base-Lrpv4f/r-base-4.0.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c LRMbase-index.c -o LRMbase-index.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 2.4.2\"" -fpic -g -O2 -ffile-prefix-map=/build/r-base-Lrpv4f/r-base-4.0.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c LRMchro-event.c -o LRMchro-event.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 2.4.2\"" -fpic -g -O2 -ffile-prefix-map=/build/r-base-Lrpv4f/r-base-4.0.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c LRMfile-io.c -o LRMfile-io.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 2.4.2\"" -fpic -g -O2 -ffile-prefix-map=/build/r-base-Lrpv4f/r-base-4.0.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c LRMhashtable.c -o LRMhashtable.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 2.4.2\"" -fpic -g -O2 -ffile-prefix-map=/build/r-base-Lrpv4f/r-base-4.0.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c LRMhelper.c -o LRMhelper.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 2.4.2\"" -fpic -g -O2 -ffile-prefix-map=/build/r-base-Lrpv4f/r-base-4.0.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c LRMseek-zlib.c -o LRMseek-zlib.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 2.4.2\"" -fpic -g -O2 -ffile-prefix-map=/build/r-base-Lrpv4f/r-base-4.0.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c LRMsorted-hashtable.c -o LRMsorted-hashtable.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 2.4.2\"" -fpic -g -O2 -ffile-prefix-map=/build/r-base-Lrpv4f/r-base-4.0.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c R_wrapper.c -o R_wrapper.o
In file included from /usr/lib/gcc/arm-linux-gnueabihf/10/include/stdint.h:9,
from HelperFunctions.h:139,
from R_wrapper.c:35:
/usr/include/stdint.h:96:23: error: conflicting types for ‘uintptr_t’
96 | typedef unsigned int uintptr_t;
| ^~~~~~~~~
In file included from R_wrapper.c:30:
/usr/share/R/include/Rinterface.h:110:24: note: previous declaration of ‘uintptr_t’ was here
110 | typedef unsigned long uintptr_t;
| ^~~~~~~~~
make[1]: *** [/usr/lib/R/etc/Makeconf:172: R_wrapper.o] Error 1
make[1]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[1]: Entering directory '/<<PKGBUILDDIR>>/src'
make[1]: Leaving directory '/<<PKGBUILDDIR>>/src'
ERROR: compilation failed for package ‘Rsubread’
* removing ‘/<<PKGBUILDDIR>>/debian/r-bioc-rsubread/usr/lib/R/site-library/Rsubread’
dh_auto_install: error: R CMD INSTALL -l /<<PKGBUILDDIR>>/debian/r-bioc-rsubread/usr/lib/R/site-library --clean . "--built-timestamp='Fri, 27 Nov 2020 11:36:46 +0100'" returned exit code 1
make: *** [debian/rules:4: binary-arch] Error 25
dpkg-buildpackage: error: debian/rules binary-arch subprocess returned exit status 2
--------------------------------------------------------------------------------
Build finished at 2021-05-08T19:23:34Z
Finished
--------
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
E: Build failure (dpkg-buildpackage died)
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build Type: any
Build-Space: 36852
Build-Time: 15
Distribution: bullseye-staging
Fail-Stage: build
Host Architecture: armhf
Install-Time: 698
Job: r-bioc-rsubread_2.4.2-1
Machine Architecture: armhf
Package: r-bioc-rsubread
Package-Time: 747
Source-Version: 2.4.2-1
Space: 36852
Status: attempted
Version: 2.4.2-1
--------------------------------------------------------------------------------
Finished at 2021-05-08T19:23:34Z
Build needed 00:12:27, 36852k disk space