I: pbuilder: network access will be disabled during build I: Current time: Sat Jul 6 23:17:49 +14 2019 I: pbuilder-time-stamp: 1562404669 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-reproducible-base.tgz] I: copying local configuration I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [r-bioc-affy_1.60.0-1.dsc] I: copying [./r-bioc-affy_1.60.0.orig.tar.gz] I: copying [./r-bioc-affy_1.60.0-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Sun Nov 11 10:37:05 2018 +14 gpgv: using RSA key 9A3C07BD06DE2F416E813A5D612EF1613E050F54 gpgv: issuer "daissi@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./r-bioc-affy_1.60.0-1.dsc dpkg-source: info: extracting r-bioc-affy in r-bioc-affy-1.60.0 dpkg-source: info: unpacking r-bioc-affy_1.60.0.orig.tar.gz dpkg-source: info: unpacking r-bioc-affy_1.60.0-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use_debian_packaged_zlib.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/30522/tmp/hooks/D01_modify_environment starting disorder-fs debug: Running on profitbricks-build2-i386. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' Adding 'diversion of /bin/sh to /bin/sh.distrib by bash' Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by bash' I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/30522/tmp/hooks/D01_modify_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: i386 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper (>= 11~), dh-r, r-base-dev, r-bioc-biocgenerics, r-bioc-biobase, r-bioc-affyio, r-cran-biocmanager, r-bioc-preprocesscore dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19231 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper (>= 11~); however: Package debhelper is not installed. pbuilder-satisfydepends-dummy depends on dh-r; however: Package dh-r is not installed. pbuilder-satisfydepends-dummy depends on r-base-dev; however: Package r-base-dev is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biocgenerics; however: Package r-bioc-biocgenerics is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biobase; however: Package r-bioc-biobase is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-affyio; however: Package r-bioc-affyio is not installed. pbuilder-satisfydepends-dummy depends on r-cran-biocmanager; however: Package r-cran-biocmanager is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-preprocesscore; however: Package r-bioc-preprocesscore is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdmainutils{a} ca-certificates{a} dctrl-tools{a} debhelper{a} dh-autoreconf{a} dh-r{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} gettext{a} gettext-base{a} gfortran{a} gfortran-8{a} groff-base{a} icu-devtools{a} intltool-debian{a} libarchive-zip-perl{a} libblas-dev{a} libblas3{a} libbsd0{a} libbz2-dev{a} libcairo2{a} libcroco3{a} libcurl4{a} libdatrie1{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfile-which-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgfortran-8-dev{a} libgfortran5{a} libglib2.0-0{a} libgraphite2-3{a} libgssapi-krb5-2{a} libharfbuzz0b{a} libice6{a} libicu-dev{a} libicu63{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack-dev{a} liblapack3{a} libldap-2.4-2{a} libldap-common{a} liblzma-dev{a} libmagic-mgc{a} libmagic1{a} libncurses-dev{a} libncurses5-dev{a} libncurses6{a} libnghttp2-14{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpaper-utils{a} libpaper1{a} libpcre16-3{a} libpcre3-dev{a} libpcre32-3{a} libpcrecpp0v5{a} libpipeline1{a} libpixman-1-0{a} libpng-dev{a} libpng16-16{a} libpsl5{a} libreadline-dev{a} libreadline7{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsigsegv2{a} libsm6{a} libssh2-1{a} libssl1.1{a} libswitch-perl{a} libtcl8.6{a} libthai-data{a} libthai0{a} libtiff5{a} libtk8.6{a} libtool{a} libuchardet0{a} libwebp6{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxft2{a} libxml2{a} libxmuu1{a} libxrender1{a} libxss1{a} libxt6{a} lsb-base{a} m4{a} man-db{a} openssl{a} pkg-config{a} po-debconf{a} r-base-core{a} r-base-dev{a} r-bioc-affyio{a} r-bioc-biobase{a} r-bioc-biocgenerics{a} r-bioc-preprocesscore{a} r-cran-biocmanager{a} readline-common{a} sensible-utils{a} ucf{a} unzip{a} x11-common{a} xauth{a} xdg-utils{a} zip{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc curl devscripts krb5-locales libarchive-cpio-perl libfile-mimeinfo-perl libglib2.0-data libgpm2 libltdl-dev libmail-sendmail-perl libnet-dbus-perl libpng-tools libsasl2-modules libx11-protocol-perl lynx publicsuffix r-cran-runit r-doc-html r-recommended shared-mime-info wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 135 newly installed, 0 to remove and 0 not upgraded. Need to get 90.4 MB of archives. After unpacking 259 MB will be used. Writing extended state information... Get: 1 http://cdn-fastly.deb.debian.org/debian buster/main i386 libbsd0 i386 0.9.1-2 [104 kB] Get: 2 http://cdn-fastly.deb.debian.org/debian buster/main i386 bsdmainutils i386 11.1.2+b1 [193 kB] Get: 3 http://cdn-fastly.deb.debian.org/debian buster/main i386 libuchardet0 i386 0.0.6-3 [65.2 kB] Get: 4 http://cdn-fastly.deb.debian.org/debian buster/main i386 groff-base i386 1.22.4-3 [935 kB] Get: 5 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpipeline1 i386 1.5.1-2 [33.3 kB] Get: 6 http://cdn-fastly.deb.debian.org/debian buster/main i386 man-db i386 2.8.5-2 [1284 kB] Get: 7 http://cdn-fastly.deb.debian.org/debian buster/main i386 readline-common all 7.0-5 [70.6 kB] Get: 8 http://cdn-fastly.deb.debian.org/debian buster/main i386 sensible-utils all 0.0.12 [15.8 kB] Get: 9 http://cdn-fastly.deb.debian.org/debian buster/main i386 libmagic-mgc i386 1:5.35-4 [242 kB] Get: 10 http://cdn-fastly.deb.debian.org/debian buster/main i386 libmagic1 i386 1:5.35-4 [124 kB] Get: 11 http://cdn-fastly.deb.debian.org/debian buster/main i386 file i386 1:5.35-4 [66.3 kB] Get: 12 http://cdn-fastly.deb.debian.org/debian buster/main i386 gettext-base i386 0.19.8.1-9 [124 kB] Get: 13 http://cdn-fastly.deb.debian.org/debian buster/main i386 ucf all 3.0038+nmu1 [69.0 kB] Get: 14 http://cdn-fastly.deb.debian.org/debian buster/main i386 libsigsegv2 i386 2.12-2 [33.2 kB] Get: 15 http://cdn-fastly.deb.debian.org/debian buster/main i386 m4 i386 1.4.18-2 [205 kB] Get: 16 http://cdn-fastly.deb.debian.org/debian buster/main i386 autoconf all 2.69-11 [341 kB] Get: 17 http://cdn-fastly.deb.debian.org/debian buster/main i386 autotools-dev all 20180224.1 [77.0 kB] Get: 18 http://cdn-fastly.deb.debian.org/debian buster/main i386 automake all 1:1.16.1-4 [771 kB] Get: 19 http://cdn-fastly.deb.debian.org/debian buster/main i386 autopoint all 0.19.8.1-9 [434 kB] Get: 20 http://cdn-fastly.deb.debian.org/debian buster/main i386 libssl1.1 i386 1.1.1c-1 [1532 kB] Get: 21 http://cdn-fastly.deb.debian.org/debian buster/main i386 openssl i386 1.1.1c-1 [851 kB] Get: 22 http://cdn-fastly.deb.debian.org/debian buster/main i386 ca-certificates all 20190110 [157 kB] Get: 23 http://cdn-fastly.deb.debian.org/debian buster/main i386 dctrl-tools i386 2.24-3 [105 kB] Get: 24 http://cdn-fastly.deb.debian.org/debian buster/main i386 libtool all 2.4.6-9 [547 kB] Get: 25 http://cdn-fastly.deb.debian.org/debian buster/main i386 dh-autoreconf all 19 [16.9 kB] Get: 26 http://cdn-fastly.deb.debian.org/debian buster/main i386 libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 27 http://cdn-fastly.deb.debian.org/debian buster/main i386 libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 28 http://cdn-fastly.deb.debian.org/debian buster/main i386 dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 29 http://cdn-fastly.deb.debian.org/debian buster/main i386 libelf1 i386 0.176-1.1 [166 kB] Get: 30 http://cdn-fastly.deb.debian.org/debian buster/main i386 dwz i386 0.12-3 [81.4 kB] Get: 31 http://cdn-fastly.deb.debian.org/debian buster/main i386 libglib2.0-0 i386 2.58.3-2 [1333 kB] Get: 32 http://cdn-fastly.deb.debian.org/debian buster/main i386 libicu63 i386 63.1-6 [8443 kB] Get: 33 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxml2 i386 2.9.4+dfsg1-7+b3 [721 kB] Get: 34 http://cdn-fastly.deb.debian.org/debian buster/main i386 libcroco3 i386 0.6.12-3 [151 kB] Get: 35 http://cdn-fastly.deb.debian.org/debian buster/main i386 libncurses6 i386 6.1+20181013-2 [109 kB] Get: 36 http://cdn-fastly.deb.debian.org/debian buster/main i386 gettext i386 0.19.8.1-9 [1314 kB] Get: 37 http://cdn-fastly.deb.debian.org/debian buster/main i386 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 38 http://cdn-fastly.deb.debian.org/debian buster/main i386 po-debconf all 1.0.21 [248 kB] Get: 39 http://cdn-fastly.deb.debian.org/debian buster/main i386 debhelper all 12.1.1 [1016 kB] Get: 40 http://cdn-fastly.deb.debian.org/debian buster/main i386 zip i386 3.0-11+b1 [242 kB] Get: 41 http://cdn-fastly.deb.debian.org/debian buster/main i386 unzip i386 6.0-23 [169 kB] Get: 42 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpaper1 i386 1.1.28 [21.4 kB] Get: 43 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpaper-utils i386 1.1.28 [18.3 kB] Get: 44 http://cdn-fastly.deb.debian.org/debian buster/main i386 xdg-utils all 1.1.3-1 [73.3 kB] Get: 45 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgfortran5 i386 8.3.0-6 [549 kB] Get: 46 http://cdn-fastly.deb.debian.org/debian buster/main i386 libblas3 i386 3.8.0-2 [142 kB] Get: 47 http://cdn-fastly.deb.debian.org/debian buster/main i386 libexpat1 i386 2.2.6-2 [103 kB] Get: 48 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpng16-16 i386 1.6.36-6 [301 kB] Get: 49 http://cdn-fastly.deb.debian.org/debian buster/main i386 libfreetype6 i386 2.9.1-3 [394 kB] Get: 50 http://cdn-fastly.deb.debian.org/debian buster/main i386 fonts-dejavu-core all 2.37-1 [1068 kB] Get: 51 http://cdn-fastly.deb.debian.org/debian buster/main i386 fontconfig-config all 2.13.1-2 [280 kB] Get: 52 http://cdn-fastly.deb.debian.org/debian buster/main i386 libfontconfig1 i386 2.13.1-2 [357 kB] Get: 53 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpixman-1-0 i386 0.36.0-1 [541 kB] Get: 54 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxau6 i386 1:1.0.8-1+b2 [20.3 kB] Get: 55 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxdmcp6 i386 1:1.1.2-3 [26.7 kB] Get: 56 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb1 i386 1.13.1-2 [141 kB] Get: 57 http://cdn-fastly.deb.debian.org/debian buster/main i386 libx11-data all 2:1.6.7-1 [298 kB] Get: 58 http://cdn-fastly.deb.debian.org/debian buster/main i386 libx11-6 i386 2:1.6.7-1 [778 kB] Get: 59 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-render0 i386 1.13.1-2 [110 kB] Get: 60 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxcb-shm0 i386 1.13.1-2 [99.4 kB] Get: 61 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxext6 i386 2:1.3.3-1+b2 [55.2 kB] Get: 62 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxrender1 i386 1:0.9.10-1 [34.1 kB] Get: 63 http://cdn-fastly.deb.debian.org/debian buster/main i386 libcairo2 i386 1.16.0-4 [744 kB] Get: 64 http://cdn-fastly.deb.debian.org/debian buster/main i386 libkeyutils1 i386 1.6-6 [15.4 kB] Get: 65 http://cdn-fastly.deb.debian.org/debian buster/main i386 libkrb5support0 i386 1.17-3 [68.6 kB] Get: 66 http://cdn-fastly.deb.debian.org/debian buster/main i386 libk5crypto3 i386 1.17-3 [126 kB] Get: 67 http://cdn-fastly.deb.debian.org/debian buster/main i386 libkrb5-3 i386 1.17-3 [396 kB] Get: 68 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgssapi-krb5-2 i386 1.17-3 [168 kB] Get: 69 http://cdn-fastly.deb.debian.org/debian buster/main i386 libsasl2-modules-db i386 2.1.27+dfsg-1 [69.9 kB] Get: 70 http://cdn-fastly.deb.debian.org/debian buster/main i386 libsasl2-2 i386 2.1.27+dfsg-1 [109 kB] Get: 71 http://cdn-fastly.deb.debian.org/debian buster/main i386 libldap-common all 2.4.47+dfsg-3 [89.4 kB] Get: 72 http://cdn-fastly.deb.debian.org/debian buster/main i386 libldap-2.4-2 i386 2.4.47+dfsg-3 [236 kB] Get: 73 http://cdn-fastly.deb.debian.org/debian buster/main i386 libnghttp2-14 i386 1.36.0-2 [90.3 kB] Get: 74 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpsl5 i386 0.20.2-2 [54.4 kB] Get: 75 http://cdn-fastly.deb.debian.org/debian buster/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2 [64.2 kB] Get: 76 http://cdn-fastly.deb.debian.org/debian buster/main i386 libssh2-1 i386 1.8.0-2.1 [147 kB] Get: 77 http://cdn-fastly.deb.debian.org/debian buster/main i386 libcurl4 i386 7.64.0-4 [358 kB] Get: 78 http://cdn-fastly.deb.debian.org/debian buster/main i386 lsb-base all 10.2019051400 [28.4 kB] Get: 79 http://cdn-fastly.deb.debian.org/debian buster/main i386 x11-common all 1:7.7+19 [251 kB] Get: 80 http://cdn-fastly.deb.debian.org/debian buster/main i386 libice6 i386 2:1.0.9-2 [61.1 kB] Get: 81 http://cdn-fastly.deb.debian.org/debian buster/main i386 libjpeg62-turbo i386 1:1.5.2-2+b1 [142 kB] Get: 82 http://cdn-fastly.deb.debian.org/debian buster/main i386 liblapack3 i386 3.8.0-2 [1974 kB] Get: 83 http://cdn-fastly.deb.debian.org/debian buster/main i386 fontconfig i386 2.13.1-2 [405 kB] Get: 84 http://cdn-fastly.deb.debian.org/debian buster/main i386 libfribidi0 i386 1.0.5-3.1 [64.1 kB] Get: 85 http://cdn-fastly.deb.debian.org/debian buster/main i386 libthai-data all 0.1.28-2 [170 kB] Get: 86 http://cdn-fastly.deb.debian.org/debian buster/main i386 libdatrie1 i386 0.2.12-2 [40.7 kB] Get: 87 http://cdn-fastly.deb.debian.org/debian buster/main i386 libthai0 i386 0.1.28-2 [55.2 kB] Get: 88 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpango-1.0-0 i386 1.42.4-6 [191 kB] Get: 89 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgraphite2-3 i386 1.3.13-7 [84.0 kB] Get: 90 http://cdn-fastly.deb.debian.org/debian buster/main i386 libharfbuzz0b i386 2.3.1-1 [1209 kB] Get: 91 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpangoft2-1.0-0 i386 1.42.4-6 [70.7 kB] Get: 92 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpangocairo-1.0-0 i386 1.42.4-6 [57.1 kB] Get: 93 http://cdn-fastly.deb.debian.org/debian buster/main i386 libreadline7 i386 7.0-5 [156 kB] Get: 94 http://cdn-fastly.deb.debian.org/debian buster/main i386 libsm6 i386 2:1.2.3-1 [35.7 kB] Get: 95 http://cdn-fastly.deb.debian.org/debian buster/main i386 libtcl8.6 i386 8.6.9+dfsg-2 [1065 kB] Get: 96 http://cdn-fastly.deb.debian.org/debian buster/main i386 libjbig0 i386 2.1-3.1+b2 [31.5 kB] Get: 97 http://cdn-fastly.deb.debian.org/debian buster/main i386 libwebp6 i386 0.6.1-2 [275 kB] Get: 98 http://cdn-fastly.deb.debian.org/debian buster/main i386 libtiff5 i386 4.0.10-4 [268 kB] Get: 99 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxft2 i386 2.3.2-2 [58.2 kB] Get: 100 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxss1 i386 1:1.2.3-1 [18.1 kB] Get: 101 http://cdn-fastly.deb.debian.org/debian buster/main i386 libtk8.6 i386 8.6.9-2 [809 kB] Get: 102 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxt6 i386 1:1.1.5-1+b3 [195 kB] Get: 103 http://cdn-fastly.deb.debian.org/debian buster/main i386 r-base-core i386 3.5.2-1 [24.0 MB] Get: 104 http://cdn-fastly.deb.debian.org/debian buster/main i386 libgfortran-8-dev i386 8.3.0-6 [603 kB] Get: 105 http://cdn-fastly.deb.debian.org/debian buster/main i386 gfortran-8 i386 8.3.0-6 [9465 kB] Get: 106 http://cdn-fastly.deb.debian.org/debian buster/main i386 gfortran i386 4:8.3.0-1 [1432 B] Get: 107 http://cdn-fastly.deb.debian.org/debian buster/main i386 libblas-dev i386 3.8.0-2 [150 kB] Get: 108 http://cdn-fastly.deb.debian.org/debian buster/main i386 liblapack-dev i386 3.8.0-2 [2035 kB] Get: 109 http://cdn-fastly.deb.debian.org/debian buster/main i386 libncurses-dev i386 6.1+20181013-2 [360 kB] Get: 110 http://cdn-fastly.deb.debian.org/debian buster/main i386 libncurses5-dev i386 6.1+20181013-2 [936 B] Get: 111 http://cdn-fastly.deb.debian.org/debian buster/main i386 libreadline-dev i386 7.0-5 [146 kB] Get: 112 http://cdn-fastly.deb.debian.org/debian buster/main i386 libjpeg62-turbo-dev i386 1:1.5.2-2+b1 [226 kB] Get: 113 http://cdn-fastly.deb.debian.org/debian buster/main i386 libjpeg-dev all 1:1.5.2-2 [57.5 kB] Get: 114 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpcre16-3 i386 2:8.39-12 [258 kB] Get: 115 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpcre32-3 i386 2:8.39-12 [250 kB] Get: 116 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpcrecpp0v5 i386 2:8.39-12 [153 kB] Get: 117 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpcre3-dev i386 2:8.39-12 [656 kB] Get: 118 http://cdn-fastly.deb.debian.org/debian buster/main i386 zlib1g-dev i386 1:1.2.11.dfsg-1 [216 kB] Get: 119 http://cdn-fastly.deb.debian.org/debian buster/main i386 libpng-dev i386 1.6.36-6 [310 kB] Get: 120 http://cdn-fastly.deb.debian.org/debian buster/main i386 libbz2-dev i386 1.0.6-9.1 [31.1 kB] Get: 121 http://cdn-fastly.deb.debian.org/debian buster/main i386 liblzma-dev i386 5.2.4-1 [219 kB] Get: 122 http://cdn-fastly.deb.debian.org/debian buster/main i386 icu-devtools i386 63.1-6 [196 kB] Get: 123 http://cdn-fastly.deb.debian.org/debian buster/main i386 libicu-dev i386 63.1-6 [9374 kB] Get: 124 http://cdn-fastly.deb.debian.org/debian buster/main i386 libxmuu1 i386 2:1.1.2-2+b3 [24.2 kB] Get: 125 http://cdn-fastly.deb.debian.org/debian buster/main i386 xauth i386 1:1.0.10-1 [40.8 kB] Get: 126 http://cdn-fastly.deb.debian.org/debian buster/main i386 pkg-config i386 0.29-6 [64.7 kB] Get: 127 http://cdn-fastly.deb.debian.org/debian buster/main i386 r-base-dev all 3.5.2-1 [4480 B] Get: 128 http://cdn-fastly.deb.debian.org/debian buster/main i386 libfile-which-perl all 1.23-1 [16.6 kB] Get: 129 http://cdn-fastly.deb.debian.org/debian buster/main i386 libswitch-perl all 2.17-2 [20.5 kB] Get: 130 http://cdn-fastly.deb.debian.org/debian buster/main i386 dh-r all 20190121 [35.1 kB] Get: 131 http://cdn-fastly.deb.debian.org/debian buster/main i386 r-bioc-affyio i386 1.52.0-1 [87.6 kB] Get: 132 http://cdn-fastly.deb.debian.org/debian buster/main i386 r-bioc-biocgenerics all 0.28.0-2 [644 kB] Get: 133 http://cdn-fastly.deb.debian.org/debian buster/main i386 r-bioc-biobase i386 2.42.0-1 [2219 kB] Get: 134 http://cdn-fastly.deb.debian.org/debian buster/main i386 r-bioc-preprocesscore i386 1.44.0-1 [146 kB] Get: 135 http://cdn-fastly.deb.debian.org/debian buster/main i386 r-cran-biocmanager all 1.30.4+dfsg-1 [77.1 kB] Fetched 90.4 MB in 1min 3s (1443 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:i386. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19231 files and directories currently installed.) Preparing to unpack .../000-libbsd0_0.9.1-2_i386.deb ... Unpacking libbsd0:i386 (0.9.1-2) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../001-bsdmainutils_11.1.2+b1_i386.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../002-libuchardet0_0.0.6-3_i386.deb ... 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Unpacking dh-strip-nondeterminism (1.1.2-1) ... Selecting previously unselected package libelf1:i386. Preparing to unpack .../028-libelf1_0.176-1.1_i386.deb ... Unpacking libelf1:i386 (0.176-1.1) ... Selecting previously unselected package dwz. Preparing to unpack .../029-dwz_0.12-3_i386.deb ... Unpacking dwz (0.12-3) ... Selecting previously unselected package libglib2.0-0:i386. Preparing to unpack .../030-libglib2.0-0_2.58.3-2_i386.deb ... Unpacking libglib2.0-0:i386 (2.58.3-2) ... Selecting previously unselected package libicu63:i386. Preparing to unpack .../031-libicu63_63.1-6_i386.deb ... Unpacking libicu63:i386 (63.1-6) ... Selecting previously unselected package libxml2:i386. Preparing to unpack .../032-libxml2_2.9.4+dfsg1-7+b3_i386.deb ... Unpacking libxml2:i386 (2.9.4+dfsg1-7+b3) ... Selecting previously unselected package libcroco3:i386. Preparing to unpack .../033-libcroco3_0.6.12-3_i386.deb ... Unpacking libcroco3:i386 (0.6.12-3) ... 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Setting up libfile-which-perl (1.23-1) ... Setting up libxau6:i386 (1:1.0.8-1+b2) ... Setting up libkeyutils1:i386 (1.6-6) ... Setting up libpsl5:i386 (0.20.2-2) ... Setting up libpcre16-3:i386 (2:8.39-12) ... Setting up libdatrie1:i386 (0.2.12-2) ... Setting up libmagic-mgc (1:5.35-4) ... Setting up libarchive-zip-perl (1.64-1) ... Setting up libglib2.0-0:i386 (2.58.3-2) ... No schema files found: doing nothing. Setting up libssl1.1:i386 (1.1.1c-1) ... Setting up unzip (6.0-23) ... Setting up x11-common (1:7.7+19) ... update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libnghttp2-14:i386 (1.36.0-2) ... Setting up libmagic1:i386 (1:5.35-4) ... Setting up gettext-base (0.19.8.1-9) ... Setting up file (1:5.35-4) ... Setting up libldap-common (2.4.47+dfsg-3) ... Setting up libjbig0:i386 (2.1-3.1+b2) ... Setting up libicu63:i386 (63.1-6) ... Setting up libkrb5support0:i386 (1.17-3) ... Setting up libsasl2-modules-db:i386 (2.1.27+dfsg-1) ... Setting up zip (3.0-11+b1) ... Setting up autotools-dev (20180224.1) ... Setting up libjpeg62-turbo:i386 (1:1.5.2-2+b1) ... Setting up libswitch-perl (2.17-2) ... Setting up libx11-data (2:1.6.7-1) ... Setting up libjpeg62-turbo-dev:i386 (1:1.5.2-2+b1) ... Setting up librtmp1:i386 (2.4+20151223.gitfa8646d.1-2) ... Setting up libncurses6:i386 (6.1+20181013-2) ... Setting up libsigsegv2:i386 (2.12-2) ... Setting up libfribidi0:i386 (1.0.5-3.1) ... Setting up libpng16-16:i386 (1.6.36-6) ... Setting up libpcre32-3:i386 (2:8.39-12) ... Setting up libtcl8.6:i386 (8.6.9+dfsg-2) ... Setting up autopoint (0.19.8.1-9) ... Setting up libwebp6:i386 (0.6.1-2) ... Setting up icu-devtools (63.1-6) ... Setting up pkg-config (0.29-6) ... Setting up fonts-dejavu-core (2.37-1) ... Setting up libk5crypto3:i386 (1.17-3) ... 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Setting up libxdmcp6:i386 (1:1.1.2-3) ... Setting up libncurses-dev:i386 (6.1+20181013-2) ... Setting up libxcb1:i386 (1.13.1-2) ... Setting up libtool (2.4.6-9) ... Setting up libxcb-render0:i386 (1.13.1-2) ... Setting up libpcre3-dev:i386 (2:8.39-12) ... Setting up gfortran-8 (8.3.0-6) ... Setting up libpng-dev:i386 (1.6.36-6) ... Setting up libjpeg-dev (1:1.5.2-2) ... Setting up libldap-2.4-2:i386 (2.4.47+dfsg-3) ... Setting up m4 (1.4.18-2) ... Setting up libxcb-shm0:i386 (1.13.1-2) ... Setting up libreadline-dev:i386 (7.0-5) ... Setting up gfortran (4:8.3.0-1) ... 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 libthai0:i386 (0.1.28-2) ... Setting up ca-certificates (20190110) ... Updating certificates in /etc/ssl/certs... 128 added, 0 removed; done. Setting up libblas3:i386 (3.8.0-2) ... update-alternatives: using /usr/lib/i386-linux-gnu/blas/libblas.so.3 to provide /usr/lib/i386-linux-gnu/libblas.so.3 (libblas.so.3-i386-linux-gnu) in auto mode Setting up libfreetype6:i386 (2.9.1-3) ... Setting up bsdmainutils (11.1.2+b1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libgssapi-krb5-2:i386 (1.17-3) ... Setting up libcroco3:i386 (0.6.12-3) ... Setting up ucf (3.0038+nmu1) ... Setting up autoconf (2.69-11) ... Setting up dwz (0.12-3) ... Setting up groff-base (1.22.4-3) ... Setting up libncurses5-dev:i386 (6.1+20181013-2) ... Setting up libcurl4:i386 (7.64.0-4) ... Setting up libx11-6:i386 (2:1.6.7-1) ... Setting up libharfbuzz0b:i386 (2.3.1-1) ... Setting up libsm6:i386 (2:1.2.3-1) ... Setting up libxmuu1:i386 (2:1.1.2-2+b3) ... Setting up libblas-dev:i386 (3.8.0-2) ... update-alternatives: using /usr/lib/i386-linux-gnu/blas/libblas.so to provide /usr/lib/i386-linux-gnu/libblas.so (libblas.so-i386-linux-gnu) in auto mode Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libpaper1:i386 (1.1.28) ... Creating config file /etc/papersize with new version Setting up liblapack3:i386 (3.8.0-2) ... update-alternatives: using /usr/lib/i386-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/i386-linux-gnu/liblapack.so.3 (liblapack.so.3-i386-linux-gnu) in auto mode Setting up gettext (0.19.8.1-9) ... Setting up libxrender1:i386 (1:0.9.10-1) ... Setting up fontconfig-config (2.13.1-2) ... Setting up libxext6:i386 (2:1.3.3-1+b2) ... Setting up libpaper-utils (1.1.28) ... Setting up man-db (2.8.5-2) ... Not building database; man-db/auto-update is not 'true'. Setting up intltool-debian (0.35.0+20060710.5) ... Setting up liblapack-dev:i386 (3.8.0-2) ... update-alternatives: using /usr/lib/i386-linux-gnu/lapack/liblapack.so to provide /usr/lib/i386-linux-gnu/liblapack.so (liblapack.so-i386-linux-gnu) in auto mode Setting up libxt6:i386 (1:1.1.5-1+b3) ... Setting up xauth (1:1.0.10-1) ... Setting up libxss1:i386 (1:1.2.3-1) ... Setting up libfontconfig1:i386 (2.13.1-2) ... Setting up fontconfig (2.13.1-2) ... Regenerating fonts cache... done. Setting up libxft2:i386 (2.3.2-2) ... Setting up po-debconf (1.0.21) ... Setting up libtk8.6:i386 (8.6.9-2) ... Setting up libpango-1.0-0:i386 (1.42.4-6) ... Setting up libcairo2:i386 (1.16.0-4) ... Setting up libpangoft2-1.0-0:i386 (1.42.4-6) ... Setting up libpangocairo-1.0-0:i386 (1.42.4-6) ... Setting up r-base-core (3.5.2-1) ... Creating config file /etc/R/Renviron with new version Setting up r-bioc-preprocesscore (1.44.0-1) ... Setting up r-bioc-affyio (1.52.0-1) ... Setting up r-bioc-biocgenerics (0.28.0-2) ... Setting up r-base-dev (3.5.2-1) ... Setting up r-cran-biocmanager (1.30.4+dfsg-1) ... Setting up r-bioc-biobase (2.42.0-1) ... Setting up dh-autoreconf (19) ... Setting up dh-strip-nondeterminism (1.1.2-1) ... Setting up debhelper (12.1.1) ... Setting up dh-r (20190121) ... Processing triggers for libc-bin (2.28-10) ... Processing triggers for ca-certificates (20190110) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.23-1). The following additional packages will be installed: libfile-find-rule-perl libnumber-compare-perl libtext-glob-perl The following NEW packages will be installed: libfile-find-rule-perl libnumber-compare-perl libtext-glob-perl usrmerge 0 upgraded, 4 newly installed, 0 to remove and 0 not upgraded. Need to get 59.5 kB of archives. After this operation, 182 kB of additional disk space will be used. Get:1 http://cdn-fastly.deb.debian.org/debian buster/main i386 libnumber-compare-perl all 0.03-1 [7642 B] Get:2 http://cdn-fastly.deb.debian.org/debian buster/main i386 libtext-glob-perl all 0.10-1 [8362 B] Get:3 http://cdn-fastly.deb.debian.org/debian buster/main i386 libfile-find-rule-perl all 0.34-1 [30.6 kB] Get:4 http://cdn-fastly.deb.debian.org/debian buster/main i386 usrmerge all 21 [12.8 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 59.5 kB in 0s (283 kB/s) Selecting previously unselected package libnumber-compare-perl. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 25060 files and directories currently installed.) Preparing to unpack .../libnumber-compare-perl_0.03-1_all.deb ... Unpacking libnumber-compare-perl (0.03-1) ... Selecting previously unselected package libtext-glob-perl. Preparing to unpack .../libtext-glob-perl_0.10-1_all.deb ... Unpacking libtext-glob-perl (0.10-1) ... Selecting previously unselected package libfile-find-rule-perl. Preparing to unpack .../libfile-find-rule-perl_0.34-1_all.deb ... Unpacking libfile-find-rule-perl (0.34-1) ... Selecting previously unselected package usrmerge. Preparing to unpack .../archives/usrmerge_21_all.deb ... Unpacking usrmerge (21) ... Setting up libtext-glob-perl (0.10-1) ... Setting up libnumber-compare-perl (0.03-1) ... Setting up libfile-find-rule-perl (0.34-1) ... Setting up usrmerge (21) ... The system has been successfully converted. Processing triggers for man-db (2.8.5-2) ... Not building database; man-db/auto-update is not 'true'. I: Building the package I: Running cd /build/r-bioc-affy-1.60.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package r-bioc-affy dpkg-buildpackage: info: source version 1.60.0-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Dylan Aïssi dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 fakeroot 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 build make: 'build' is up to date. fakeroot debian/rules binary dh binary --buildsystem R dh_update_autotools_config -O--buildsystem=R dh_autoreconf -O--buildsystem=R dh_auto_configure -O--buildsystem=R dh_auto_build -O--buildsystem=R dh_auto_test -O--buildsystem=R create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=R dh_prep -O--buildsystem=R dh_auto_install -O--buildsystem=R I: R packages needed for DEP8: runit I: R Package: affy Version: 1.60.0 I: Building using R version 3.5.2-1 I: R API version: r-api-3.5 I: Using built-time from d/changelog: Sat, 10 Nov 2018 21:32:30 +0100 mkdir -p /build/r-bioc-affy-1.60.0/debian/r-bioc-affy/usr/lib/R/site-library R CMD INSTALL -l /build/r-bioc-affy-1.60.0/debian/r-bioc-affy/usr/lib/R/site-library --clean . "--built-timestamp='Sat, 10 Nov 2018 21:32:30 +0100'" * installing *source* package 'affy' ... checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for main in -lz... yes checking zlib.h usability... yes checking zlib.h presence... yes checking for zlib.h... yes checking if zlib version >= 1.1.3... yes configure: creating ./config.status config.status: creating src/Makevars ** libs make[1]: Entering directory '/build/r-bioc-affy-1.60.0/src' gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -I"/usr/lib/R/site-library/preprocessCore/include" -g -O2 -ffile-prefix-map=/build/r-bioc-affy-1.60.0=. -fstack-protector-strong -Wformat -Werror=format-security -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wS4r1W/r-base-3.5.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c chipbackground.c -o chipbackground.o gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -I"/usr/lib/R/site-library/preprocessCore/include" -g -O2 -ffile-prefix-map=/build/r-bioc-affy-1.60.0=. -fstack-protector-strong -Wformat -Werror=format-security -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wS4r1W/r-base-3.5.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c getall_locations.c -o getall_locations.o gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -I"/usr/lib/R/site-library/preprocessCore/include" -g -O2 -ffile-prefix-map=/build/r-bioc-affy-1.60.0=. -fstack-protector-strong -Wformat -Werror=format-security -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wS4r1W/r-base-3.5.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c mas5calls.c -o mas5calls.o gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -I"/usr/lib/R/site-library/preprocessCore/include" -g -O2 -ffile-prefix-map=/build/r-bioc-affy-1.60.0=. -fstack-protector-strong -Wformat -Werror=format-security -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wS4r1W/r-base-3.5.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rma2.c -o rma2.o gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -I"/usr/lib/R/site-library/preprocessCore/include" -g -O2 -ffile-prefix-map=/build/r-bioc-affy-1.60.0=. -fstack-protector-strong -Wformat -Werror=format-security -fpic -g -O2 -fdebug-prefix-map=/build/r-base-wS4r1W/r-base-3.5.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rma_common.c -o rma_common.o gcc -std=gnu99 -shared -L/usr/lib/R/lib -Wl,-z,relro -o affy.so chipbackground.o getall_locations.o mas5calls.o rma2.o rma_common.o -lz -L/usr/lib/R/lib -lR make[1]: Leaving directory '/build/r-bioc-affy-1.60.0/src' make[1]: Entering directory '/build/r-bioc-affy-1.60.0/src' make[1]: Leaving directory '/build/r-bioc-affy-1.60.0/src' installing to /build/r-bioc-affy-1.60.0/debian/r-bioc-affy/usr/lib/R/site-library/affy/libs ** R ** data ** demo ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded * DONE (affy) W: Ignoring specified R dependency: R (>= 2.8.0) I: Using r-bioc-biocgenerics for Depends:BiocGenerics (>= 0.1.12) I: Using r-bioc-biobase for Depends:Biobase (>= 2.5.5) I: Using r-cran-runit for Recommends:runit W: Cannot find a debian package for Suggests:tkWidgets (>= 1.19.0) W: Cannot find a debian package for Suggests:affydata W: Cannot find a debian package for Suggests:widgetTools I: Using r-bioc-affyio for Imports:affyio (>= 1.13.3) I: Using r-cran-biocmanager for Imports:BiocManager I: Using r-bioc-preprocesscore for Imports:preprocessCore I: BioConductor API version: r-api-bioc-3.8 dh_installdocs -O--buildsystem=R dh_installchangelogs -O--buildsystem=R dh_installinit -O--buildsystem=R dh_perl -O--buildsystem=R dh_link -O--buildsystem=R dh_strip_nondeterminism -O--buildsystem=R dh_compress -O--buildsystem=R dh_fixperms -O--buildsystem=R dh_missing -O--buildsystem=R dh_strip -O--buildsystem=R dh_makeshlibs -O--buildsystem=R dh_shlibdeps -O--buildsystem=R dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/r-bioc-affy/usr/lib/R/site-library/affy/libs/affy.so was not linked against libz.so.1 (it uses none of the library's symbols) dh_installdeb -O--buildsystem=R dh_gencontrol -O--buildsystem=R dh_md5sums -O--buildsystem=R dh_builddeb -O--buildsystem=R dpkg-deb: building package 'r-bioc-affy' in '../r-bioc-affy_1.60.0-1_i386.deb'. dpkg-deb: building package 'r-bioc-affy-dbgsym' in '../r-bioc-affy-dbgsym_1.60.0-1_i386.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../r-bioc-affy_1.60.0-1_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: copying local configuration I: user script /srv/workspace/pbuilder/30522/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/30522/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/30522 and its subdirectories I: Current time: Sat Jul 6 23:31:36 +14 2019 I: pbuilder-time-stamp: 1562405496