I: pbuilder: network access will be disabled during build I: Current time: Fri Jul 29 09:37:34 +14 2022 I: pbuilder-time-stamp: 1659037054 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-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 [probabel_0.5.0+dfsg-4.dsc] I: copying [./probabel_0.5.0+dfsg.orig.tar.xz] I: copying [./probabel_0.5.0+dfsg-4.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.lv4MsPeE/trustedkeys.kbx': General error gpgv: Signature made Tue Aug 4 20:55:13 2020 +14 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 ./probabel_0.5.0+dfsg-4.dsc dpkg-source: info: extracting probabel in probabel-0.5.0+dfsg dpkg-source: info: unpacking probabel_0.5.0+dfsg.orig.tar.xz dpkg-source: info: unpacking probabel_0.5.0+dfsg-4.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying examples.patch dpkg-source: info: applying c++11.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/44884/tmp/hooks/D01_modify_environment starting debug: Running on ionos6-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/44884/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/44884/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:hostcomplete:interactive_comments:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="1" [2]="4" [3]="1" [4]="release" [5]="i686-pc-linux-gnu") BASH_VERSION='5.1.4(1)-release' BUILDDIR=/build BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=i386 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=18' DIRSTACK=() DISTRIBUTION= EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=i686 HOST_ARCH=i386 IFS=' ' INVOCATION_ID=196be0ea9d784e1cb805815a08d76c9a LANG=C LANGUAGE=de_CH:de LC_ALL=C LD_LIBRARY_PATH=/usr/lib/libeatmydata LD_PRELOAD=libeatmydata.so MACHTYPE=i686-pc-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=44884 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.DzF46vpiXv/pbuilderrc_0rbS --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.DzF46vpiXv/b2 --logfile b2/build.log --extrapackages usrmerge probabel_0.5.0+dfsg-4.dsc' SUDO_GID=112 SUDO_UID=107 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://85.184.249.68:3128 I: uname -a Linux i-capture-the-hostname 4.19.0-17-amd64 #1 SMP Debian 4.19.194-1 (2021-06-10) x86_64 GNU/Linux I: ls -l /bin total 5776 -rwxr-xr-x 1 root root 1367848 Jun 22 2021 bash -rwxr-xr-x 3 root root 38280 Jul 21 2020 bunzip2 -rwxr-xr-x 3 root root 38280 Jul 21 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 21 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 21 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 21 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 5 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 21 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 21 2020 bzgrep -rwxr-xr-x 3 root root 38280 Jul 21 2020 bzip2 -rwxr-xr-x 1 root root 17768 Jul 21 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 21 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 21 2020 bzmore -rwxr-xr-x 1 root root 38824 Sep 23 2020 cat -rwxr-xr-x 1 root root 71624 Sep 23 2020 chgrp -rwxr-xr-x 1 root root 67528 Sep 23 2020 chmod -rwxr-xr-x 1 root root 75752 Sep 23 2020 chown -rwxr-xr-x 1 root root 157960 Sep 23 2020 cp -rwxr-xr-x 1 root root 128724 Dec 11 2020 dash -rwxr-xr-x 1 root root 124904 Sep 23 2020 date -rwxr-xr-x 1 root root 92172 Sep 23 2020 dd -rwxr-xr-x 1 root root 100752 Sep 23 2020 df -rwxr-xr-x 1 root root 153964 Sep 23 2020 dir -rwxr-xr-x 1 root root 83644 Feb 8 2021 dmesg lrwxrwxrwx 1 root root 8 Nov 8 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 8 2019 domainname -> hostname -rwxr-xr-x 1 root root 34664 Sep 23 2020 echo -rwxr-xr-x 1 root root 28 Nov 10 2020 egrep -rwxr-xr-x 1 root root 34664 Sep 23 2020 false -rwxr-xr-x 1 root root 28 Nov 10 2020 fgrep -rwxr-xr-x 1 root root 71928 Feb 8 2021 findmnt -rwsr-xr-x 1 root root 30112 Feb 27 2021 fusermount -rwxr-xr-x 1 root root 210488 Nov 10 2020 grep -rwxr-xr-x 2 root root 2346 Mar 3 2021 gunzip -rwxr-xr-x 1 root root 6376 Mar 3 2021 gzexe -rwxr-xr-x 1 root root 100952 Mar 3 2021 gzip -rwxr-xr-x 1 root root 21916 Nov 8 2019 hostname -rwxr-xr-x 1 root root 83980 Sep 23 2020 ln -rwxr-xr-x 1 root root 55572 Feb 8 2020 login -rwxr-xr-x 1 root root 153964 Sep 23 2020 ls -rwxr-xr-x 1 root root 153124 Feb 8 2021 lsblk -rwxr-xr-x 1 root root 96328 Sep 23 2020 mkdir -rwxr-xr-x 1 root root 79912 Sep 23 2020 mknod -rwxr-xr-x 1 root root 47048 Sep 23 2020 mktemp -rwxr-xr-x 1 root root 58920 Feb 8 2021 more -rwsr-xr-x 1 root root 50720 Feb 8 2021 mount -rwxr-xr-x 1 root root 13856 Feb 8 2021 mountpoint -rwxr-xr-x 1 root root 157996 Sep 23 2020 mv lrwxrwxrwx 1 root root 8 Nov 8 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 19 2021 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 38824 Sep 23 2020 pwd lrwxrwxrwx 1 root root 4 Jun 22 2021 rbash -> bash -rwxr-xr-x 1 root root 46984 Sep 23 2020 readlink -rwxr-xr-x 1 root root 75720 Sep 23 2020 rm -rwxr-xr-x 1 root root 46984 Sep 23 2020 rmdir -rwxr-xr-x 1 root root 22292 Sep 28 2020 run-parts -rwxr-xr-x 1 root root 125036 Dec 23 2018 sed lrwxrwxrwx 1 root root 4 Jul 29 09:37 sh -> bash lrwxrwxrwx 1 root root 4 Jul 29 05:48 sh.distrib -> dash -rwxr-xr-x 1 root root 34696 Sep 23 2020 sleep -rwxr-xr-x 1 root root 83880 Sep 23 2020 stty -rwsr-xr-x 1 root root 79396 Feb 8 2021 su -rwxr-xr-x 1 root root 34696 Sep 23 2020 sync -rwxr-xr-x 1 root root 602584 Feb 17 2021 tar -rwxr-xr-x 1 root root 13860 Sep 28 2020 tempfile -rwxr-xr-x 1 root root 108520 Sep 23 2020 touch -rwxr-xr-x 1 root root 34664 Sep 23 2020 true -rwxr-xr-x 1 root root 17768 Feb 27 2021 ulockmgr_server -rwsr-xr-x 1 root root 30236 Feb 8 2021 umount -rwxr-xr-x 1 root root 34664 Sep 23 2020 uname -rwxr-xr-x 2 root root 2346 Mar 3 2021 uncompress -rwxr-xr-x 1 root root 153964 Sep 23 2020 vdir -rwxr-xr-x 1 root root 63024 Feb 8 2021 wdctl lrwxrwxrwx 1 root root 8 Nov 8 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 3 2021 zcat -rwxr-xr-x 1 root root 1678 Mar 3 2021 zcmp -rwxr-xr-x 1 root root 5880 Mar 3 2021 zdiff -rwxr-xr-x 1 root root 29 Mar 3 2021 zegrep -rwxr-xr-x 1 root root 29 Mar 3 2021 zfgrep -rwxr-xr-x 1 root root 2081 Mar 3 2021 zforce -rwxr-xr-x 1 root root 7585 Mar 3 2021 zgrep -rwxr-xr-x 1 root root 2206 Mar 3 2021 zless -rwxr-xr-x 1 root root 1842 Mar 3 2021 zmore -rwxr-xr-x 1 root root 4553 Mar 3 2021 znew I: user script /srv/workspace/pbuilder/44884/tmp/hooks/D02_print_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-compat (= 13), libeigen3-dev, texlive-latex-base, texlive-latex-extra, texlive-latex-recommended, texlive-fonts-recommended dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19675 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-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on libeigen3-dev; however: Package libeigen3-dev is not installed. pbuilder-satisfydepends-dummy depends on texlive-latex-base; however: Package texlive-latex-base is not installed. pbuilder-satisfydepends-dummy depends on texlive-latex-extra; however: Package texlive-latex-extra is not installed. pbuilder-satisfydepends-dummy depends on texlive-latex-recommended; however: Package texlive-latex-recommended is not installed. pbuilder-satisfydepends-dummy depends on texlive-fonts-recommended; however: Package texlive-fonts-recommended 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} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-lmodern{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libapache-pom-java{a} libarchive-zip-perl{a} libbrotli1{a} libbsd0{a} libcairo2{a} libcommons-logging-java{a} libcommons-parent-java{a} libdebhelper-perl{a} libeigen3-dev{a} libelf1{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfontbox-java{a} libfontconfig1{a} libfreetype6{a} libglib2.0-0{a} libgraphite2-3{a} libharfbuzz0b{a} libice6{a} libicu67{a} libkpathsea6{a} libmagic-mgc{a} libmagic1{a} libmd0{a} libmpdec3{a} libpaper-utils{a} libpaper1{a} libpdfbox-java{a} libpipeline1{a} libpixman-1-0{a} libpng16-16{a} libptexenc1{a} libpython3-stdlib{a} libpython3.9-minimal{a} libpython3.9-stdlib{a} libreadline8{a} libsigsegv2{a} libsm6{a} libsub-override-perl{a} libsynctex2{a} libteckit0{a} libtexlua53{a} libtexluajit2{a} libtool{a} libuchardet0{a} libx11-6{a} libx11-data{a} libxau6{a} libxaw7{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxi6{a} libxml2{a} libxmu6{a} libxpm4{a} libxrender1{a} libxt6{a} libzzip-0-13{a} m4{a} man-db{a} media-types{a} pkg-config{a} po-debconf{a} preview-latex-style{a} python3{a} python3-minimal{a} python3.9{a} python3.9-minimal{a} readline-common{a} sensible-utils{a} t1utils{a} tex-common{a} texlive-base{a} texlive-binaries{a} texlive-fonts-recommended{a} texlive-latex-base{a} texlive-latex-extra{a} texlive-latex-recommended{a} texlive-pictures{a} ucf{a} x11-common{a} xdg-utils{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl dvisvgm libarchive-cpio-perl libfile-mimeinfo-perl libglib2.0-data libltdl-dev libmail-sendmail-perl libnet-dbus-perl libx11-protocol-perl lmodern lynx ruby shared-mime-info tex-gyre texlive-plain-generic tipa tk wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 102 newly installed, 0 to remove and 0 not upgraded. Need to get 118 MB of archives. After unpacking 407 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main i386 bsdextrautils i386 2.36.1-7 [148 kB] Get: 2 http://deb.debian.org/debian bullseye/main i386 libuchardet0 i386 0.0.7-1 [67.9 kB] Get: 3 http://deb.debian.org/debian bullseye/main i386 groff-base i386 1.22.4-6 [952 kB] Get: 4 http://deb.debian.org/debian bullseye/main i386 libpipeline1 i386 1.5.3-1 [36.8 kB] Get: 5 http://deb.debian.org/debian bullseye/main i386 man-db i386 2.9.4-2 [1367 kB] Get: 6 http://deb.debian.org/debian bullseye/main i386 libpython3.9-minimal i386 3.9.2-1 [801 kB] Get: 7 http://deb.debian.org/debian bullseye/main i386 libexpat1 i386 2.2.10-2 [98.8 kB] Get: 8 http://deb.debian.org/debian bullseye/main i386 python3.9-minimal i386 3.9.2-1 [1956 kB] Get: 9 http://deb.debian.org/debian bullseye/main i386 python3-minimal i386 3.9.2-3 [38.2 kB] Get: 10 http://deb.debian.org/debian bullseye/main i386 media-types all 4.0.0 [30.3 kB] Get: 11 http://deb.debian.org/debian bullseye/main i386 libmpdec3 i386 2.5.1-1 [91.9 kB] Get: 12 http://deb.debian.org/debian bullseye/main i386 readline-common all 8.1-1 [73.7 kB] Get: 13 http://deb.debian.org/debian bullseye/main i386 libreadline8 i386 8.1-1 [173 kB] Get: 14 http://deb.debian.org/debian bullseye/main i386 libpython3.9-stdlib i386 3.9.2-1 [1703 kB] Get: 15 http://deb.debian.org/debian bullseye/main i386 python3.9 i386 3.9.2-1 [466 kB] Get: 16 http://deb.debian.org/debian bullseye/main i386 libpython3-stdlib i386 3.9.2-3 [21.4 kB] Get: 17 http://deb.debian.org/debian bullseye/main i386 python3 i386 3.9.2-3 [37.9 kB] Get: 18 http://deb.debian.org/debian bullseye/main i386 sensible-utils all 0.0.14 [14.8 kB] Get: 19 http://deb.debian.org/debian bullseye/main i386 ucf all 3.0043 [74.0 kB] Get: 20 http://deb.debian.org/debian bullseye/main i386 tex-common all 6.16 [53.7 kB] Get: 21 http://deb.debian.org/debian bullseye/main i386 libmagic-mgc i386 1:5.39-3 [273 kB] Get: 22 http://deb.debian.org/debian bullseye/main i386 libmagic1 i386 1:5.39-3 [133 kB] Get: 23 http://deb.debian.org/debian bullseye/main i386 file i386 1:5.39-3 [69.0 kB] Get: 24 http://deb.debian.org/debian bullseye/main i386 gettext-base i386 0.21-4 [176 kB] Get: 25 http://deb.debian.org/debian bullseye/main i386 libsigsegv2 i386 2.13-1 [35.1 kB] Get: 26 http://deb.debian.org/debian bullseye/main i386 m4 i386 1.4.18-5 [206 kB] Get: 27 http://deb.debian.org/debian bullseye/main i386 autoconf all 2.69-14 [313 kB] Get: 28 http://deb.debian.org/debian bullseye/main i386 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 29 http://deb.debian.org/debian bullseye/main i386 automake all 1:1.16.3-2 [814 kB] Get: 30 http://deb.debian.org/debian bullseye/main i386 autopoint all 0.21-4 [510 kB] Get: 31 http://deb.debian.org/debian bullseye/main i386 libdebhelper-perl all 13.3.4 [189 kB] Get: 32 http://deb.debian.org/debian bullseye/main i386 libtool all 2.4.6-15 [513 kB] Get: 33 http://deb.debian.org/debian bullseye/main i386 dh-autoreconf all 20 [17.1 kB] Get: 34 http://deb.debian.org/debian bullseye/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 35 http://deb.debian.org/debian bullseye/main i386 libsub-override-perl all 0.09-2 [10.2 kB] Get: 36 http://deb.debian.org/debian bullseye/main i386 libfile-stripnondeterminism-perl all 1.11.0-1 [25.6 kB] Get: 37 http://deb.debian.org/debian bullseye/main i386 dh-strip-nondeterminism all 1.11.0-1 [15.3 kB] Get: 38 http://deb.debian.org/debian bullseye/main i386 libelf1 i386 0.183-1 [171 kB] Get: 39 http://deb.debian.org/debian bullseye/main i386 dwz i386 0.13+20210201-1 [179 kB] Get: 40 http://deb.debian.org/debian bullseye/main i386 libicu67 i386 67.1-6 [8776 kB] Get: 41 http://deb.debian.org/debian bullseye/main i386 libxml2 i386 2.9.10+dfsg-6.7 [728 kB] Get: 42 http://deb.debian.org/debian bullseye/main i386 gettext i386 0.21-4 [1322 kB] Get: 43 http://deb.debian.org/debian bullseye/main i386 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 44 http://deb.debian.org/debian bullseye/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 45 http://deb.debian.org/debian bullseye/main i386 debhelper all 13.3.4 [1049 kB] Get: 46 http://deb.debian.org/debian bullseye/main i386 fonts-dejavu-core all 2.37-2 [1069 kB] Get: 47 http://deb.debian.org/debian bullseye/main i386 fontconfig-config all 2.13.1-4.2 [281 kB] Get: 48 http://deb.debian.org/debian bullseye/main i386 fonts-lmodern all 2.004.5-6.1 [4540 kB] Get: 49 http://deb.debian.org/debian bullseye/main i386 libapache-pom-java all 18-1 [4676 B] Get: 50 http://deb.debian.org/debian bullseye/main i386 libbrotli1 i386 1.0.9-2+b2 [286 kB] Get: 51 http://deb.debian.org/debian bullseye/main i386 libmd0 i386 1.0.3-3 [28.9 kB] Get: 52 http://deb.debian.org/debian bullseye/main i386 libbsd0 i386 0.11.3-1 [111 kB] Get: 53 http://deb.debian.org/debian bullseye/main i386 libpng16-16 i386 1.6.37-3 [303 kB] Get: 54 http://deb.debian.org/debian bullseye/main i386 libfreetype6 i386 2.10.4+dfsg-1 [429 kB] Get: 55 http://deb.debian.org/debian bullseye/main i386 libfontconfig1 i386 2.13.1-4.2 [358 kB] Get: 56 http://deb.debian.org/debian bullseye/main i386 libpixman-1-0 i386 0.40.0-1 [545 kB] Get: 57 http://deb.debian.org/debian bullseye/main i386 libxau6 i386 1:1.0.9-1 [20.0 kB] Get: 58 http://deb.debian.org/debian bullseye/main i386 libxdmcp6 i386 1:1.1.2-3 [26.7 kB] Get: 59 http://deb.debian.org/debian bullseye/main i386 libxcb1 i386 1.14-3 [144 kB] Get: 60 http://deb.debian.org/debian bullseye/main i386 libx11-data all 2:1.7.1-1 [310 kB] Get: 61 http://deb.debian.org/debian bullseye/main i386 libx11-6 i386 2:1.7.1-1 [796 kB] Get: 62 http://deb.debian.org/debian bullseye/main i386 libxcb-render0 i386 1.14-3 [112 kB] Get: 63 http://deb.debian.org/debian bullseye/main i386 libxcb-shm0 i386 1.14-3 [102 kB] Get: 64 http://deb.debian.org/debian bullseye/main i386 libxext6 i386 2:1.3.3-1.1 [55.2 kB] Get: 65 http://deb.debian.org/debian bullseye/main i386 libxrender1 i386 1:0.9.10-1 [34.1 kB] Get: 66 http://deb.debian.org/debian bullseye/main i386 libcairo2 i386 1.16.0-5 [746 kB] Get: 67 http://deb.debian.org/debian bullseye/main i386 libcommons-parent-java all 43-1 [10.8 kB] Get: 68 http://deb.debian.org/debian bullseye/main i386 libcommons-logging-java all 1.2-2 [62.2 kB] Get: 69 http://deb.debian.org/debian bullseye/main i386 libglib2.0-0 i386 2.66.8-1 [1437 kB] Get: 70 http://deb.debian.org/debian bullseye/main i386 pkg-config i386 0.29.2-1 [66.3 kB] Get: 71 http://deb.debian.org/debian bullseye/main i386 libeigen3-dev all 3.3.9-2 [858 kB] Get: 72 http://deb.debian.org/debian bullseye/main i386 libfontbox-java all 1:1.8.16-2 [211 kB] Get: 73 http://deb.debian.org/debian bullseye/main i386 libgraphite2-3 i386 1.3.14-1 [84.0 kB] Get: 74 http://deb.debian.org/debian bullseye/main i386 libharfbuzz0b i386 2.7.4-1 [1490 kB] Get: 75 http://deb.debian.org/debian bullseye/main i386 x11-common all 1:7.7+22 [252 kB] Get: 76 http://deb.debian.org/debian bullseye/main i386 libice6 i386 2:1.0.10-1 [60.8 kB] Get: 77 http://deb.debian.org/debian bullseye/main i386 libkpathsea6 i386 2020.20200327.54578-7 [176 kB] Get: 78 http://deb.debian.org/debian bullseye/main i386 libpaper1 i386 1.1.28+b1 [21.7 kB] Get: 79 http://deb.debian.org/debian bullseye/main i386 libpaper-utils i386 1.1.28+b1 [18.6 kB] Get: 80 http://deb.debian.org/debian bullseye/main i386 libpdfbox-java all 1:1.8.16-2 [5205 kB] Get: 81 http://deb.debian.org/debian bullseye/main i386 libptexenc1 i386 2020.20200327.54578-7 [65.1 kB] Get: 82 http://deb.debian.org/debian bullseye/main i386 libsm6 i386 2:1.2.3-1 [35.7 kB] Get: 83 http://deb.debian.org/debian bullseye/main i386 libsynctex2 i386 2020.20200327.54578-7 [85.9 kB] Get: 84 http://deb.debian.org/debian bullseye/main i386 libteckit0 i386 2.5.10+ds1-3 [277 kB] Get: 85 http://deb.debian.org/debian bullseye/main i386 libtexlua53 i386 2020.20200327.54578-7 [146 kB] Get: 86 http://deb.debian.org/debian bullseye/main i386 libtexluajit2 i386 2020.20200327.54578-7 [284 kB] Get: 87 http://deb.debian.org/debian bullseye/main i386 libxt6 i386 1:1.2.0-1 [195 kB] Get: 88 http://deb.debian.org/debian bullseye/main i386 libxmu6 i386 2:1.1.2-2+b3 [62.8 kB] Get: 89 http://deb.debian.org/debian bullseye/main i386 libxpm4 i386 1:3.5.12-1 [50.9 kB] Get: 90 http://deb.debian.org/debian bullseye/main i386 libxaw7 i386 2:1.0.13-1.1 [210 kB] Get: 91 http://deb.debian.org/debian bullseye/main i386 libxi6 i386 2:1.7.10-1 [85.1 kB] Get: 92 http://deb.debian.org/debian bullseye/main i386 libzzip-0-13 i386 0.13.62-3.3 [57.6 kB] Get: 93 http://deb.debian.org/debian bullseye/main i386 preview-latex-style all 12.2-1 [201 kB] Get: 94 http://deb.debian.org/debian bullseye/main i386 t1utils i386 1.41-4 [62.3 kB] Get: 95 http://deb.debian.org/debian bullseye/main i386 texlive-binaries i386 2020.20200327.54578-7 [10.2 MB] Get: 96 http://deb.debian.org/debian bullseye/main i386 xdg-utils all 1.1.3-4.1 [75.5 kB] Get: 97 http://deb.debian.org/debian bullseye/main i386 texlive-base all 2020.20210202-3 [20.8 MB] Get: 98 http://deb.debian.org/debian bullseye/main i386 texlive-fonts-recommended all 2020.20210202-3 [5002 kB] Get: 99 http://deb.debian.org/debian bullseye/main i386 texlive-latex-base all 2020.20210202-3 [1120 kB] Get: 100 http://deb.debian.org/debian bullseye/main i386 texlive-latex-recommended all 2020.20210202-3 [14.5 MB] Get: 101 http://deb.debian.org/debian bullseye/main i386 texlive-pictures all 2020.20210202-3 [6743 kB] Get: 102 http://deb.debian.org/debian bullseye/main i386 texlive-latex-extra all 2020.20210202-3 [13.7 MB] Fetched 118 MB in 2s (60.7 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (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 ... 19675 files and directories currently installed.) Preparing to unpack .../0-bsdextrautils_2.36.1-7_i386.deb ... Unpacking bsdextrautils (2.36.1-7) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../1-libuchardet0_0.0.7-1_i386.deb ... Unpacking libuchardet0:i386 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../2-groff-base_1.22.4-6_i386.deb ... Unpacking groff-base (1.22.4-6) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../3-libpipeline1_1.5.3-1_i386.deb ... Unpacking libpipeline1:i386 (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../4-man-db_2.9.4-2_i386.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package libpython3.9-minimal:i386. Preparing to unpack .../5-libpython3.9-minimal_3.9.2-1_i386.deb ... Unpacking libpython3.9-minimal:i386 (3.9.2-1) ... Selecting previously unselected package libexpat1:i386. Preparing to unpack .../6-libexpat1_2.2.10-2_i386.deb ... Unpacking libexpat1:i386 (2.2.10-2) ... Selecting previously unselected package python3.9-minimal. Preparing to unpack .../7-python3.9-minimal_3.9.2-1_i386.deb ... Unpacking python3.9-minimal (3.9.2-1) ... Setting up libpython3.9-minimal:i386 (3.9.2-1) ... Setting up libexpat1:i386 (2.2.10-2) ... Setting up python3.9-minimal (3.9.2-1) ... Selecting previously unselected package python3-minimal. (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 ... 20542 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.9.2-3_i386.deb ... Unpacking python3-minimal (3.9.2-3) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_4.0.0_all.deb ... Unpacking media-types (4.0.0) ... Selecting previously unselected package libmpdec3:i386. Preparing to unpack .../2-libmpdec3_2.5.1-1_i386.deb ... Unpacking libmpdec3:i386 (2.5.1-1) ... Selecting previously unselected package readline-common. Preparing to unpack .../3-readline-common_8.1-1_all.deb ... Unpacking readline-common (8.1-1) ... Selecting previously unselected package libreadline8:i386. Preparing to unpack .../4-libreadline8_8.1-1_i386.deb ... Unpacking libreadline8:i386 (8.1-1) ... Selecting previously unselected package libpython3.9-stdlib:i386. Preparing to unpack .../5-libpython3.9-stdlib_3.9.2-1_i386.deb ... Unpacking libpython3.9-stdlib:i386 (3.9.2-1) ... Selecting previously unselected package python3.9. Preparing to unpack .../6-python3.9_3.9.2-1_i386.deb ... Unpacking python3.9 (3.9.2-1) ... Selecting previously unselected package libpython3-stdlib:i386. Preparing to unpack .../7-libpython3-stdlib_3.9.2-3_i386.deb ... Unpacking libpython3-stdlib:i386 (3.9.2-3) ... Setting up python3-minimal (3.9.2-3) ... Selecting previously unselected package python3. (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 ... 20963 files and directories currently installed.) Preparing to unpack .../00-python3_3.9.2-3_i386.deb ... Unpacking python3 (3.9.2-3) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... Selecting previously unselected package ucf. Preparing to unpack .../02-ucf_3.0043_all.deb ... Moving old data out of the way Unpacking ucf (3.0043) ... Selecting previously unselected package tex-common. Preparing to unpack .../03-tex-common_6.16_all.deb ... Unpacking tex-common (6.16) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../04-libmagic-mgc_1%3a5.39-3_i386.deb ... Unpacking libmagic-mgc (1:5.39-3) ... Selecting previously unselected package libmagic1:i386. Preparing to unpack .../05-libmagic1_1%3a5.39-3_i386.deb ... Unpacking libmagic1:i386 (1:5.39-3) ... Selecting previously unselected package file. Preparing to unpack .../06-file_1%3a5.39-3_i386.deb ... Unpacking file (1:5.39-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../07-gettext-base_0.21-4_i386.deb ... Unpacking gettext-base (0.21-4) ... Selecting previously unselected package libsigsegv2:i386. Preparing to unpack .../08-libsigsegv2_2.13-1_i386.deb ... Unpacking libsigsegv2:i386 (2.13-1) ... Selecting previously unselected package m4. Preparing to unpack .../09-m4_1.4.18-5_i386.deb ... Unpacking m4 (1.4.18-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../10-autoconf_2.69-14_all.deb ... Unpacking autoconf (2.69-14) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../11-autotools-dev_20180224.1+nmu1_all.deb ... Unpacking autotools-dev (20180224.1+nmu1) ... Selecting previously unselected package automake. Preparing to unpack .../12-automake_1%3a1.16.3-2_all.deb ... Unpacking automake (1:1.16.3-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../13-autopoint_0.21-4_all.deb ... Unpacking autopoint (0.21-4) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../14-libdebhelper-perl_13.3.4_all.deb ... Unpacking libdebhelper-perl (13.3.4) ... Selecting previously unselected package libtool. Preparing to unpack .../15-libtool_2.4.6-15_all.deb ... Unpacking libtool (2.4.6-15) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../16-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../17-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 .../18-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 .../19-libfile-stripnondeterminism-perl_1.11.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.11.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.11.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.11.0-1) ... Selecting previously unselected package libelf1:i386. Preparing to unpack .../21-libelf1_0.183-1_i386.deb ... Unpacking libelf1:i386 (0.183-1) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.13+20210201-1_i386.deb ... Unpacking dwz (0.13+20210201-1) ... Selecting previously unselected package libicu67:i386. Preparing to unpack .../23-libicu67_67.1-6_i386.deb ... Unpacking libicu67:i386 (67.1-6) ... Selecting previously unselected package libxml2:i386. Preparing to unpack .../24-libxml2_2.9.10+dfsg-6.7_i386.deb ... Unpacking libxml2:i386 (2.9.10+dfsg-6.7) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.21-4_i386.deb ... Unpacking gettext (0.21-4) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../26-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 .../27-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../28-debhelper_13.3.4_all.deb ... Unpacking debhelper (13.3.4) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../29-fonts-dejavu-core_2.37-2_all.deb ... Unpacking fonts-dejavu-core (2.37-2) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../30-fontconfig-config_2.13.1-4.2_all.deb ... Unpacking fontconfig-config (2.13.1-4.2) ... Selecting previously unselected package fonts-lmodern. Preparing to unpack .../31-fonts-lmodern_2.004.5-6.1_all.deb ... Unpacking fonts-lmodern (2.004.5-6.1) ... Selecting previously unselected package libapache-pom-java. Preparing to unpack .../32-libapache-pom-java_18-1_all.deb ... Unpacking libapache-pom-java (18-1) ... Selecting previously unselected package libbrotli1:i386. Preparing to unpack .../33-libbrotli1_1.0.9-2+b2_i386.deb ... Unpacking libbrotli1:i386 (1.0.9-2+b2) ... Selecting previously unselected package libmd0:i386. Preparing to unpack .../34-libmd0_1.0.3-3_i386.deb ... Unpacking libmd0:i386 (1.0.3-3) ... Selecting previously unselected package libbsd0:i386. Preparing to unpack .../35-libbsd0_0.11.3-1_i386.deb ... Unpacking libbsd0:i386 (0.11.3-1) ... Selecting previously unselected package libpng16-16:i386. Preparing to unpack .../36-libpng16-16_1.6.37-3_i386.deb ... Unpacking libpng16-16:i386 (1.6.37-3) ... Selecting previously unselected package libfreetype6:i386. Preparing to unpack .../37-libfreetype6_2.10.4+dfsg-1_i386.deb ... Unpacking libfreetype6:i386 (2.10.4+dfsg-1) ... Selecting previously unselected package libfontconfig1:i386. Preparing to unpack .../38-libfontconfig1_2.13.1-4.2_i386.deb ... Unpacking libfontconfig1:i386 (2.13.1-4.2) ... Selecting previously unselected package libpixman-1-0:i386. Preparing to unpack .../39-libpixman-1-0_0.40.0-1_i386.deb ... Unpacking libpixman-1-0:i386 (0.40.0-1) ... Selecting previously unselected package libxau6:i386. Preparing to unpack .../40-libxau6_1%3a1.0.9-1_i386.deb ... Unpacking libxau6:i386 (1:1.0.9-1) ... Selecting previously unselected package libxdmcp6:i386. Preparing to unpack .../41-libxdmcp6_1%3a1.1.2-3_i386.deb ... Unpacking libxdmcp6:i386 (1:1.1.2-3) ... Selecting previously unselected package libxcb1:i386. Preparing to unpack .../42-libxcb1_1.14-3_i386.deb ... Unpacking libxcb1:i386 (1.14-3) ... Selecting previously unselected package libx11-data. Preparing to unpack .../43-libx11-data_2%3a1.7.1-1_all.deb ... Unpacking libx11-data (2:1.7.1-1) ... Selecting previously unselected package libx11-6:i386. Preparing to unpack .../44-libx11-6_2%3a1.7.1-1_i386.deb ... Unpacking libx11-6:i386 (2:1.7.1-1) ... Selecting previously unselected package libxcb-render0:i386. Preparing to unpack .../45-libxcb-render0_1.14-3_i386.deb ... Unpacking libxcb-render0:i386 (1.14-3) ... Selecting previously unselected package libxcb-shm0:i386. Preparing to unpack .../46-libxcb-shm0_1.14-3_i386.deb ... Unpacking libxcb-shm0:i386 (1.14-3) ... Selecting previously unselected package libxext6:i386. Preparing to unpack .../47-libxext6_2%3a1.3.3-1.1_i386.deb ... Unpacking libxext6:i386 (2:1.3.3-1.1) ... Selecting previously unselected package libxrender1:i386. Preparing to unpack .../48-libxrender1_1%3a0.9.10-1_i386.deb ... Unpacking libxrender1:i386 (1:0.9.10-1) ... Selecting previously unselected package libcairo2:i386. Preparing to unpack .../49-libcairo2_1.16.0-5_i386.deb ... Unpacking libcairo2:i386 (1.16.0-5) ... Selecting previously unselected package libcommons-parent-java. Preparing to unpack .../50-libcommons-parent-java_43-1_all.deb ... Unpacking libcommons-parent-java (43-1) ... Selecting previously unselected package libcommons-logging-java. Preparing to unpack .../51-libcommons-logging-java_1.2-2_all.deb ... Unpacking libcommons-logging-java (1.2-2) ... Selecting previously unselected package libglib2.0-0:i386. Preparing to unpack .../52-libglib2.0-0_2.66.8-1_i386.deb ... Unpacking libglib2.0-0:i386 (2.66.8-1) ... Selecting previously unselected package pkg-config. Preparing to unpack .../53-pkg-config_0.29.2-1_i386.deb ... Unpacking pkg-config (0.29.2-1) ... Selecting previously unselected package libeigen3-dev. Preparing to unpack .../54-libeigen3-dev_3.3.9-2_all.deb ... Unpacking libeigen3-dev (3.3.9-2) ... Selecting previously unselected package libfontbox-java. Preparing to unpack .../55-libfontbox-java_1%3a1.8.16-2_all.deb ... Unpacking libfontbox-java (1:1.8.16-2) ... Selecting previously unselected package libgraphite2-3:i386. Preparing to unpack .../56-libgraphite2-3_1.3.14-1_i386.deb ... Unpacking libgraphite2-3:i386 (1.3.14-1) ... Selecting previously unselected package libharfbuzz0b:i386. Preparing to unpack .../57-libharfbuzz0b_2.7.4-1_i386.deb ... Unpacking libharfbuzz0b:i386 (2.7.4-1) ... Selecting previously unselected package x11-common. Preparing to unpack .../58-x11-common_1%3a7.7+22_all.deb ... Unpacking x11-common (1:7.7+22) ... Selecting previously unselected package libice6:i386. Preparing to unpack .../59-libice6_2%3a1.0.10-1_i386.deb ... Unpacking libice6:i386 (2:1.0.10-1) ... Selecting previously unselected package libkpathsea6:i386. Preparing to unpack .../60-libkpathsea6_2020.20200327.54578-7_i386.deb ... Unpacking libkpathsea6:i386 (2020.20200327.54578-7) ... Selecting previously unselected package libpaper1:i386. Preparing to unpack .../61-libpaper1_1.1.28+b1_i386.deb ... Unpacking libpaper1:i386 (1.1.28+b1) ... Selecting previously unselected package libpaper-utils. Preparing to unpack .../62-libpaper-utils_1.1.28+b1_i386.deb ... Unpacking libpaper-utils (1.1.28+b1) ... Selecting previously unselected package libpdfbox-java. Preparing to unpack .../63-libpdfbox-java_1%3a1.8.16-2_all.deb ... Unpacking libpdfbox-java (1:1.8.16-2) ... Selecting previously unselected package libptexenc1:i386. Preparing to unpack .../64-libptexenc1_2020.20200327.54578-7_i386.deb ... Unpacking libptexenc1:i386 (2020.20200327.54578-7) ... Selecting previously unselected package libsm6:i386. Preparing to unpack .../65-libsm6_2%3a1.2.3-1_i386.deb ... Unpacking libsm6:i386 (2:1.2.3-1) ... Selecting previously unselected package libsynctex2:i386. Preparing to unpack .../66-libsynctex2_2020.20200327.54578-7_i386.deb ... Unpacking libsynctex2:i386 (2020.20200327.54578-7) ... Selecting previously unselected package libteckit0:i386. Preparing to unpack .../67-libteckit0_2.5.10+ds1-3_i386.deb ... Unpacking libteckit0:i386 (2.5.10+ds1-3) ... Selecting previously unselected package libtexlua53:i386. Preparing to unpack .../68-libtexlua53_2020.20200327.54578-7_i386.deb ... Unpacking libtexlua53:i386 (2020.20200327.54578-7) ... Selecting previously unselected package libtexluajit2:i386. Preparing to unpack .../69-libtexluajit2_2020.20200327.54578-7_i386.deb ... Unpacking libtexluajit2:i386 (2020.20200327.54578-7) ... Selecting previously unselected package libxt6:i386. Preparing to unpack .../70-libxt6_1%3a1.2.0-1_i386.deb ... Unpacking libxt6:i386 (1:1.2.0-1) ... Selecting previously unselected package libxmu6:i386. Preparing to unpack .../71-libxmu6_2%3a1.1.2-2+b3_i386.deb ... Unpacking libxmu6:i386 (2:1.1.2-2+b3) ... Selecting previously unselected package libxpm4:i386. Preparing to unpack .../72-libxpm4_1%3a3.5.12-1_i386.deb ... Unpacking libxpm4:i386 (1:3.5.12-1) ... Selecting previously unselected package libxaw7:i386. Preparing to unpack .../73-libxaw7_2%3a1.0.13-1.1_i386.deb ... Unpacking libxaw7:i386 (2:1.0.13-1.1) ... Selecting previously unselected package libxi6:i386. Preparing to unpack .../74-libxi6_2%3a1.7.10-1_i386.deb ... Unpacking libxi6:i386 (2:1.7.10-1) ... Selecting previously unselected package libzzip-0-13:i386. Preparing to unpack .../75-libzzip-0-13_0.13.62-3.3_i386.deb ... Unpacking libzzip-0-13:i386 (0.13.62-3.3) ... Selecting previously unselected package preview-latex-style. Preparing to unpack .../76-preview-latex-style_12.2-1_all.deb ... Unpacking preview-latex-style (12.2-1) ... Selecting previously unselected package t1utils. Preparing to unpack .../77-t1utils_1.41-4_i386.deb ... Unpacking t1utils (1.41-4) ... Selecting previously unselected package texlive-binaries. Preparing to unpack .../78-texlive-binaries_2020.20200327.54578-7_i386.deb ... Unpacking texlive-binaries (2020.20200327.54578-7) ... Selecting previously unselected package xdg-utils. Preparing to unpack .../79-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 .../80-texlive-base_2020.20210202-3_all.deb ... Unpacking texlive-base (2020.20210202-3) ... Selecting previously unselected package texlive-fonts-recommended. Preparing to unpack .../81-texlive-fonts-recommended_2020.20210202-3_all.deb ... Unpacking texlive-fonts-recommended (2020.20210202-3) ... Selecting previously unselected package texlive-latex-base. Preparing to unpack .../82-texlive-latex-base_2020.20210202-3_all.deb ... Unpacking texlive-latex-base (2020.20210202-3) ... Selecting previously unselected package texlive-latex-recommended. Preparing to unpack .../83-texlive-latex-recommended_2020.20210202-3_all.deb ... Unpacking texlive-latex-recommended (2020.20210202-3) ... Selecting previously unselected package texlive-pictures. Preparing to unpack .../84-texlive-pictures_2020.20210202-3_all.deb ... Unpacking texlive-pictures (2020.20210202-3) ... Selecting previously unselected package texlive-latex-extra. Preparing to unpack .../85-texlive-latex-extra_2020.20210202-3_all.deb ... Unpacking texlive-latex-extra (2020.20210202-3) ... Setting up media-types (4.0.0) ... Setting up libpipeline1:i386 (1.5.3-1) ... Setting up libgraphite2-3:i386 (1.3.14-1) ... Setting up libpixman-1-0:i386 (0.40.0-1) ... Setting up libxau6:i386 (1:1.0.9-1) ... Setting up bsdextrautils (2.36.1-7) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libicu67:i386 (67.1-6) ... Setting up libmagic-mgc (1:5.39-3) ... Setting up libtexlua53:i386 (2020.20200327.54578-7) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:i386 (2.66.8-1) ... No schema files found: doing nothing. Setting up libtexluajit2:i386 (2020.20200327.54578-7) ... Setting up libdebhelper-perl (13.3.4) ... Setting up libbrotli1:i386 (1.0.9-2+b2) ... Setting up libfontbox-java (1:1.8.16-2) ... Setting up x11-common (1:7.7+22) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libmagic1:i386 (1:5.39-3) ... Setting up gettext-base (0.21-4) ... Setting up libzzip-0-13:i386 (0.13.62-3.3) ... Setting up file (1:5.39-3) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libx11-data (2:1.7.1-1) ... Setting up libteckit0:i386 (2.5.10+ds1-3) ... Setting up libapache-pom-java (18-1) ... Setting up libsigsegv2:i386 (2.13-1) ... Setting up t1utils (1.41-4) ... Setting up libpng16-16:i386 (1.6.37-3) ... Setting up autopoint (0.21-4) ... Setting up pkg-config (0.29.2-1) ... Setting up fonts-dejavu-core (2.37-2) ... Setting up libkpathsea6:i386 (2020.20200327.54578-7) ... Setting up libmd0:i386 (1.0.3-3) ... Setting up sensible-utils (0.0.14) ... Setting up libuchardet0:i386 (0.0.7-1) ... Setting up libmpdec3:i386 (2.5.1-1) ... Setting up fonts-lmodern (2.004.5-6.1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libbsd0:i386 (0.11.3-1) ... Setting up libelf1:i386 (0.183-1) ... Setting up readline-common (8.1-1) ... Setting up libxml2:i386 (2.9.10+dfsg-6.7) ... 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 libsynctex2:i386 (2020.20200327.54578-7) ... Setting up libfile-stripnondeterminism-perl (1.11.0-1) ... Setting up libice6:i386 (2:1.0.10-1) ... Setting up libxdmcp6:i386 (1:1.1.2-3) ... Setting up libxcb1:i386 (1.14-3) ... Setting up gettext (0.21-4) ... Setting up libpdfbox-java (1:1.8.16-2) ... Setting up libtool (2.4.6-15) ... Setting up libxcb-render0:i386 (1.14-3) ... Setting up libreadline8:i386 (8.1-1) ... Setting up libcommons-parent-java (43-1) ... Setting up libcommons-logging-java (1.2-2) ... Setting up m4 (1.4.18-5) ... Setting up libxcb-shm0:i386 (1.14-3) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libptexenc1:i386 (2020.20200327.54578-7) ... Setting up libfreetype6:i386 (2.10.4+dfsg-1) ... Setting up libeigen3-dev (3.3.9-2) ... 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 libx11-6:i386 (2:1.7.1-1) ... Setting up libharfbuzz0b:i386 (2.7.4-1) ... Setting up libsm6:i386 (2:1.2.3-1) ... Setting up libpython3.9-stdlib:i386 (3.9.2-1) ... Setting up libpython3-stdlib:i386 (3.9.2-3) ... 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:i386 (1.1.28+b1) ... Creating config file /etc/papersize with new version Setting up libxpm4:i386 (1:3.5.12-1) ... Setting up libxrender1:i386 (1:0.9.10-1) ... Setting up fontconfig-config (2.13.1-4.2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libxext6:i386 (2:1.3.3-1.1) ... Setting up libpaper-utils (1.1.28+b1) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up dh-autoreconf (20) ... Setting up tex-common (6.16) ... update-language: texlive-base not installed and configured, doing nothing! Setting up libxt6:i386 (1:1.2.0-1) ... Setting up libfontconfig1:i386 (2.13.1-4.2) ... Setting up python3.9 (3.9.2-1) ... Setting up libxmu6:i386 (2:1.1.2-2+b3) ... Setting up libxi6:i386 (2:1.7.10-1) ... Setting up preview-latex-style (12.2-1) ... Setting up debhelper (13.3.4) ... Setting up python3 (3.9.2-3) ... Setting up libxaw7:i386 (2:1.0.13-1.1) ... Setting up libcairo2:i386 (1.16.0-5) ... Setting up texlive-binaries (2020.20200327.54578-7) ... 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 (2020.20210202-3) ... 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 texlive-latex-base (2020.20210202-3) ... Setting up texlive-latex-recommended (2020.20210202-3) ... Setting up texlive-pictures (2020.20210202-3) ... Setting up texlive-fonts-recommended (2020.20210202-3) ... Setting up texlive-latex-extra (2020.20210202-3) ... Processing triggers for libc-bin (2.31-12) ... Processing triggers for tex-common (6.16) ... 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. 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... 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, 157 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian bullseye/main i386 libnumber-compare-perl all 0.03-1.1 [6956 B] Get:2 http://deb.debian.org/debian bullseye/main i386 libtext-glob-perl all 0.11-1 [8888 B] Get:3 http://deb.debian.org/debian bullseye/main i386 libfile-find-rule-perl all 0.34-1 [30.6 kB] Get:4 http://deb.debian.org/debian bullseye/main i386 usrmerge all 25 [13.0 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 59.5 kB in 0s (5306 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 ... 43080 files and directories currently installed.) Preparing to unpack .../libnumber-compare-perl_0.03-1.1_all.deb ... Unpacking libnumber-compare-perl (0.03-1.1) ... Selecting previously unselected package libtext-glob-perl. Preparing to unpack .../libtext-glob-perl_0.11-1_all.deb ... Unpacking libtext-glob-perl (0.11-1) ... 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_25_all.deb ... Unpacking usrmerge (25) ... Setting up libtext-glob-perl (0.11-1) ... Setting up libnumber-compare-perl (0.03-1.1) ... Setting up libfile-find-rule-perl (0.34-1) ... Setting up usrmerge (25) ... The system has been successfully converted. Processing triggers for man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. I: Building the package I: Running cd /build/probabel-0.5.0+dfsg/ && 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 probabel dpkg-buildpackage: info: source version 0.5.0+dfsg-4 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Pranav Ballaney dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/build/probabel-0.5.0+dfsg' dh_auto_configure -- --disable-silent-rules --with-eigen-include-path=/usr/include/eigen3 ./configure --build=i686-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/i386-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --disable-silent-rules --with-eigen-include-path=/usr/include/eigen3 checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking whether make supports nested variables... (cached) yes checking whether to enable maintainer-specific portions of Makefiles... no 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 whether gcc understands -c and -o together... yes checking whether make supports the include directive... yes (GNU style) checking dependency style of gcc... none checking whether ln -s works... yes checking for g++... g++ checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking dependency style of g++... none checking how to run the C++ preprocessor... g++ -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 size_t... yes checking for working alloca.h... yes checking for alloca... yes checking float.h usability... yes checking float.h presence... yes checking for float.h... yes checking for inttypes.h... (cached) yes checking libintl.h usability... yes checking libintl.h presence... yes checking for libintl.h... yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking stddef.h usability... yes checking stddef.h presence... yes checking for stddef.h... yes checking for stdint.h... (cached) yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking sys/param.h usability... yes checking sys/param.h presence... yes checking for sys/param.h... yes checking wchar.h usability... yes checking wchar.h presence... yes checking for wchar.h... yes checking wctype.h usability... yes checking wctype.h presence... yes checking for wctype.h... yes checking Eigen/Dense usability... yes checking Eigen/Dense presence... yes checking for Eigen/Dense... yes checking Eigen/LU usability... yes checking Eigen/LU presence... yes checking for Eigen/LU... yes checking for stdbool.h that conforms to C99... no checking for _Bool... no checking for inline... inline checking for off_t... yes checking for size_t... (cached) yes checking for error_at_line... yes checking for pow... yes checking for putenv... yes checking for sqrt... yes checking for strdup... yes checking for strncasecmp... yes checking for floor... yes checking for working strtod... yes checking for special C compiler options needed for large files... no checking for _FILE_OFFSET_BITS value needed for large files... 64 checking for _LARGEFILE_SOURCE value needed for large files... no checking for a sed that does not truncate output... /usr/bin/sed checking for gawk... (cached) mawk checking for R... no configure: R not found - Unable to do tests comparing ProbABEL output against R output configure: building of the PDF of the user manual from LaTeX source is enabled checking for pdflatex... pdflatex checking for doxygen... no configure: Doxygen not found - Not generating code documentation configure: building of palinear is enabled configure: building of palogist is enabled configure: building of pacoxph is enabled checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating doc/Makefile config.status: creating examples/Makefile config.status: creating checks/Makefile config.status: creating checks/R-tests/Makefile config.status: creating src/config.h config.status: executing depfiles commands make[1]: Leaving directory '/build/probabel-0.5.0+dfsg' dh_auto_build make -j18 make[1]: Entering directory '/build/probabel-0.5.0+dfsg' Making all in src make[2]: Entering directory '/build/probabel-0.5.0+dfsg/src' make all-am make[3]: Entering directory '/build/probabel-0.5.0+dfsg/src' g++ -DHAVE_CONFIG_H -I. -DLINEAR -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palinear-main.o `test -f 'main.cpp' || echo './'`main.cpp g++ -DHAVE_CONFIG_H -I. -DLINEAR -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palinear-invsigma.o `test -f 'invsigma.cpp' || echo './'`invsigma.cpp g++ -DHAVE_CONFIG_H -I. -DLINEAR -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palinear-gendata.o `test -f 'gendata.cpp' || echo './'`gendata.cpp g++ -DHAVE_CONFIG_H -I. -DLINEAR -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palinear-eigen_mematrix.o `test -f 'eigen_mematrix.cpp' || echo './'`eigen_mematrix.cpp g++ -DHAVE_CONFIG_H -I. -DLINEAR -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palinear-command_line_settings.o `test -f 'command_line_settings.cpp' || echo './'`command_line_settings.cpp g++ -DHAVE_CONFIG_H -I. -DLINEAR -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palinear-reg1.o `test -f 'reg1.cpp' || echo './'`reg1.cpp g++ -DHAVE_CONFIG_H -I. -DLINEAR -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palinear-usage.o `test -f 'usage.cpp' || echo './'`usage.cpp g++ -DHAVE_CONFIG_H -I. -DLINEAR -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palinear-utilities.o `test -f 'utilities.cpp' || echo './'`utilities.cpp g++ -DHAVE_CONFIG_H -I. -DLINEAR -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palinear-phedata.o `test -f 'phedata.cpp' || echo './'`phedata.cpp g++ -DHAVE_CONFIG_H -I. -DLINEAR -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palinear-regdata.o `test -f 'regdata.cpp' || echo './'`regdata.cpp g++ -DHAVE_CONFIG_H -I. -DLINEAR -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palinear-maskedmatrix.o `test -f 'maskedmatrix.cpp' || echo './'`maskedmatrix.cpp g++ -DHAVE_CONFIG_H -I. -DLINEAR -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palinear-main_functions_dump.o `test -f 'main_functions_dump.cpp' || echo './'`main_functions_dump.cpp g++ -DHAVE_CONFIG_H -I. -DLINEAR -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palinear-mlinfo.o `test -f 'mlinfo.cpp' || echo './'`mlinfo.cpp g++ -DHAVE_CONFIG_H -I. -DLOGISTIC -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palogist-main.o `test -f 'main.cpp' || echo './'`main.cpp g++ -DHAVE_CONFIG_H -I. -DLOGISTIC -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palogist-invsigma.o `test -f 'invsigma.cpp' || echo './'`invsigma.cpp g++ -DHAVE_CONFIG_H -I. -DLOGISTIC -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palogist-gendata.o `test -f 'gendata.cpp' || echo './'`gendata.cpp g++ -DHAVE_CONFIG_H -I. -DLOGISTIC -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palogist-eigen_mematrix.o `test -f 'eigen_mematrix.cpp' || echo './'`eigen_mematrix.cpp g++ -DHAVE_CONFIG_H -I. -DLOGISTIC -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palogist-command_line_settings.o `test -f 'command_line_settings.cpp' || echo './'`command_line_settings.cpp g++ -DHAVE_CONFIG_H -I. -DLOGISTIC -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palogist-reg1.o `test -f 'reg1.cpp' || echo './'`reg1.cpp g++ -DHAVE_CONFIG_H -I. -DLOGISTIC -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palogist-usage.o `test -f 'usage.cpp' || echo './'`usage.cpp g++ -DHAVE_CONFIG_H -I. -DLOGISTIC -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palogist-utilities.o `test -f 'utilities.cpp' || echo './'`utilities.cpp g++ -DHAVE_CONFIG_H -I. -DLOGISTIC -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palogist-phedata.o `test -f 'phedata.cpp' || echo './'`phedata.cpp g++ -DHAVE_CONFIG_H -I. -DLOGISTIC -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palogist-regdata.o `test -f 'regdata.cpp' || echo './'`regdata.cpp g++ -DHAVE_CONFIG_H -I. -DLOGISTIC -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palogist-maskedmatrix.o `test -f 'maskedmatrix.cpp' || echo './'`maskedmatrix.cpp g++ -DHAVE_CONFIG_H -I. -DLOGISTIC -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palogist-main_functions_dump.o `test -f 'main_functions_dump.cpp' || echo './'`main_functions_dump.cpp g++ -DHAVE_CONFIG_H -I. -DLOGISTIC -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o palogist-mlinfo.o `test -f 'mlinfo.cpp' || echo './'`mlinfo.cpp g++ -DHAVE_CONFIG_H -I. -DLOGISTIC -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/palogist-AbstractMatrix.o `test -f 'fvlib/AbstractMatrix.cpp' || echo './'`fvlib/AbstractMatrix.cpp g++ -DHAVE_CONFIG_H -I. -DLOGISTIC -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/palogist-CastUtils.o `test -f 'fvlib/CastUtils.cpp' || echo './'`fvlib/CastUtils.cpp g++ -DHAVE_CONFIG_H -I. -DLOGISTIC -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/palogist-convert_util.o `test -f 'fvlib/convert_util.cpp' || echo './'`fvlib/convert_util.cpp g++ -DHAVE_CONFIG_H -I. -DLOGISTIC -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/palogist-FileVector.o `test -f 'fvlib/FileVector.cpp' || echo './'`fvlib/FileVector.cpp g++ -DHAVE_CONFIG_H -I. -DLOGISTIC -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/palogist-FilteredMatrix.o `test -f 'fvlib/FilteredMatrix.cpp' || echo './'`fvlib/FilteredMatrix.cpp g++ -DHAVE_CONFIG_H -I. -DLOGISTIC -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/palogist-frutil.o `test -f 'fvlib/frutil.cpp' || echo './'`fvlib/frutil.cpp g++ -DHAVE_CONFIG_H -I. -DLOGISTIC -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/palogist-Logger.o `test -f 'fvlib/Logger.cpp' || echo './'`fvlib/Logger.cpp g++ -DHAVE_CONFIG_H -I. -DLOGISTIC -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/palogist-RealHandlerWrapper.o `test -f 'fvlib/RealHandlerWrapper.cpp' || echo './'`fvlib/RealHandlerWrapper.cpp g++ -DHAVE_CONFIG_H -I. -DLOGISTIC -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/palogist-ReusableFileHandle.o `test -f 'fvlib/ReusableFileHandle.cpp' || echo './'`fvlib/ReusableFileHandle.cpp g++ -DHAVE_CONFIG_H -I. -DLOGISTIC -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/palogist-Transposer.o `test -f 'fvlib/Transposer.cpp' || echo './'`fvlib/Transposer.cpp gcc -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pacoxph-coxfit2.o `test -f 'coxfit2.c' || echo './'`coxfit2.c gcc -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pacoxph-chinv2.o `test -f 'chinv2.c' || echo './'`chinv2.c gcc -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pacoxph-cholesky2.o `test -f 'cholesky2.c' || echo './'`cholesky2.c gcc -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pacoxph-chsolve2.o `test -f 'chsolve2.c' || echo './'`chsolve2.c gcc -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pacoxph-dmatrix.o `test -f 'dmatrix.c' || echo './'`dmatrix.c g++ -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pacoxph-main.o `test -f 'main.cpp' || echo './'`main.cpp g++ -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pacoxph-invsigma.o `test -f 'invsigma.cpp' || echo './'`invsigma.cpp g++ -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pacoxph-gendata.o `test -f 'gendata.cpp' || echo './'`gendata.cpp g++ -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pacoxph-eigen_mematrix.o `test -f 'eigen_mematrix.cpp' || echo './'`eigen_mematrix.cpp g++ -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pacoxph-command_line_settings.o `test -f 'command_line_settings.cpp' || echo './'`command_line_settings.cpp g++ -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pacoxph-reg1.o `test -f 'reg1.cpp' || echo './'`reg1.cpp g++ -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pacoxph-usage.o `test -f 'usage.cpp' || echo './'`usage.cpp g++ -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pacoxph-utilities.o `test -f 'utilities.cpp' || echo './'`utilities.cpp g++ -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pacoxph-phedata.o `test -f 'phedata.cpp' || echo './'`phedata.cpp g++ -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pacoxph-regdata.o `test -f 'regdata.cpp' || echo './'`regdata.cpp g++ -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pacoxph-maskedmatrix.o `test -f 'maskedmatrix.cpp' || echo './'`maskedmatrix.cpp g++ -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pacoxph-main_functions_dump.o `test -f 'main_functions_dump.cpp' || echo './'`main_functions_dump.cpp g++ -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pacoxph-mlinfo.o `test -f 'mlinfo.cpp' || echo './'`mlinfo.cpp g++ -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/pacoxph-AbstractMatrix.o `test -f 'fvlib/AbstractMatrix.cpp' || echo './'`fvlib/AbstractMatrix.cpp g++ -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/pacoxph-CastUtils.o `test -f 'fvlib/CastUtils.cpp' || echo './'`fvlib/CastUtils.cpp g++ -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/pacoxph-convert_util.o `test -f 'fvlib/convert_util.cpp' || echo './'`fvlib/convert_util.cpp g++ -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/pacoxph-FileVector.o `test -f 'fvlib/FileVector.cpp' || echo './'`fvlib/FileVector.cpp g++ -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/pacoxph-FilteredMatrix.o `test -f 'fvlib/FilteredMatrix.cpp' || echo './'`fvlib/FilteredMatrix.cpp g++ -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/pacoxph-frutil.o `test -f 'fvlib/frutil.cpp' || echo './'`fvlib/frutil.cpp g++ -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/pacoxph-Logger.o `test -f 'fvlib/Logger.cpp' || echo './'`fvlib/Logger.cpp g++ -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/pacoxph-RealHandlerWrapper.o `test -f 'fvlib/RealHandlerWrapper.cpp' || echo './'`fvlib/RealHandlerWrapper.cpp g++ -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/pacoxph-ReusableFileHandle.o `test -f 'fvlib/ReusableFileHandle.cpp' || echo './'`fvlib/ReusableFileHandle.cpp g++ -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/pacoxph-Transposer.o `test -f 'fvlib/Transposer.cpp' || echo './'`fvlib/Transposer.cpp g++ -DHAVE_CONFIG_H -I. -DCOXPH -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pacoxph-coxph_data.o `test -f 'coxph_data.cpp' || echo './'`coxph_data.cpp g++ -DHAVE_CONFIG_H -I. -DLINEAR -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/palinear-AbstractMatrix.o `test -f 'fvlib/AbstractMatrix.cpp' || echo './'`fvlib/AbstractMatrix.cpp g++ -DHAVE_CONFIG_H -I. -DLINEAR -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/palinear-CastUtils.o `test -f 'fvlib/CastUtils.cpp' || echo './'`fvlib/CastUtils.cpp g++ -DHAVE_CONFIG_H -I. -DLINEAR -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/palinear-convert_util.o `test -f 'fvlib/convert_util.cpp' || echo './'`fvlib/convert_util.cpp g++ -DHAVE_CONFIG_H -I. -DLINEAR -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/palinear-FileVector.o `test -f 'fvlib/FileVector.cpp' || echo './'`fvlib/FileVector.cpp g++ -DHAVE_CONFIG_H -I. -DLINEAR -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/palinear-FilteredMatrix.o `test -f 'fvlib/FilteredMatrix.cpp' || echo './'`fvlib/FilteredMatrix.cpp g++ -DHAVE_CONFIG_H -I. -DLINEAR -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/palinear-frutil.o `test -f 'fvlib/frutil.cpp' || echo './'`fvlib/frutil.cpp g++ -DHAVE_CONFIG_H -I. -DLINEAR -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/palinear-Logger.o `test -f 'fvlib/Logger.cpp' || echo './'`fvlib/Logger.cpp g++ -DHAVE_CONFIG_H -I. -DLINEAR -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/palinear-RealHandlerWrapper.o `test -f 'fvlib/RealHandlerWrapper.cpp' || echo './'`fvlib/RealHandlerWrapper.cpp g++ -DHAVE_CONFIG_H -I. -DLINEAR -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/palinear-ReusableFileHandle.o `test -f 'fvlib/ReusableFileHandle.cpp' || echo './'`fvlib/ReusableFileHandle.cpp g++ -DHAVE_CONFIG_H -I. -DLINEAR -I/usr/include/eigen3 -Wdate-time -D_FORTIFY_SOURCE=2 -D_NOT_R_FILEVECTOR -D_FILE_OFFSET_BITS=64 -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o fvlib/palinear-Transposer.o `test -f 'fvlib/Transposer.cpp' || echo './'`fvlib/Transposer.cpp g++ -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o palinear palinear-main.o palinear-invsigma.o palinear-gendata.o palinear-eigen_mematrix.o palinear-command_line_settings.o palinear-reg1.o palinear-usage.o palinear-utilities.o palinear-phedata.o palinear-regdata.o palinear-maskedmatrix.o palinear-main_functions_dump.o palinear-mlinfo.o fvlib/palinear-AbstractMatrix.o fvlib/palinear-CastUtils.o fvlib/palinear-convert_util.o fvlib/palinear-FileVector.o fvlib/palinear-FilteredMatrix.o fvlib/palinear-frutil.o fvlib/palinear-Logger.o fvlib/palinear-RealHandlerWrapper.o fvlib/palinear-ReusableFileHandle.o fvlib/palinear-Transposer.o g++ -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o palogist palogist-main.o palogist-invsigma.o palogist-gendata.o palogist-eigen_mematrix.o palogist-command_line_settings.o palogist-reg1.o palogist-usage.o palogist-utilities.o palogist-phedata.o palogist-regdata.o palogist-maskedmatrix.o palogist-main_functions_dump.o palogist-mlinfo.o fvlib/palogist-AbstractMatrix.o fvlib/palogist-CastUtils.o fvlib/palogist-convert_util.o fvlib/palogist-FileVector.o fvlib/palogist-FilteredMatrix.o fvlib/palogist-frutil.o fvlib/palogist-Logger.o fvlib/palogist-RealHandlerWrapper.o fvlib/palogist-ReusableFileHandle.o fvlib/palogist-Transposer.o g++ -I ../src/include -g -O2 -fdebug-prefix-map=/build/probabel-0.5.0+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o pacoxph pacoxph-coxfit2.o pacoxph-chinv2.o pacoxph-cholesky2.o pacoxph-chsolve2.o pacoxph-dmatrix.o pacoxph-main.o pacoxph-invsigma.o pacoxph-gendata.o pacoxph-eigen_mematrix.o pacoxph-command_line_settings.o pacoxph-reg1.o pacoxph-usage.o pacoxph-utilities.o pacoxph-phedata.o pacoxph-regdata.o pacoxph-maskedmatrix.o pacoxph-main_functions_dump.o pacoxph-mlinfo.o fvlib/pacoxph-AbstractMatrix.o fvlib/pacoxph-CastUtils.o fvlib/pacoxph-convert_util.o fvlib/pacoxph-FileVector.o fvlib/pacoxph-FilteredMatrix.o fvlib/pacoxph-frutil.o fvlib/pacoxph-Logger.o fvlib/pacoxph-RealHandlerWrapper.o fvlib/pacoxph-ReusableFileHandle.o fvlib/pacoxph-Transposer.o pacoxph-coxph_data.o make[3]: Leaving directory '/build/probabel-0.5.0+dfsg/src' make[2]: Leaving directory '/build/probabel-0.5.0+dfsg/src' Making all in doc make[2]: Entering directory '/build/probabel-0.5.0+dfsg/doc' === Making ProbABEL_manual.aux file === pdflatex ./ProbABEL_manual.tex This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./ProbABEL_manual.tex LaTeX2e <2020-10-01> patch level 4 L3 programming layer <2021-01-09> xparse <2020-03-03> (/usr/share/texlive/texmf-dist/tex/latex/base/article.cls Document Class: article 2020/04/10 v1.4m Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/size12.clo)) (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty) (/usr/share/texlive/texmf-dist/tex/latex/xcolor/xcolor.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/xcolor/svgnam.def)) (/usr/share/texlive/texmf-dist/tex/latex/tools/verbatim.sty) (/usr/share/texlive/texmf-dist/tex/latex/listings/listings.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/keyval.sty) (/usr/share/texlive/texmf-dist/tex/latex/listings/lstmisc.sty) (/usr/share/texlive/texmf-dist/tex/latex/listings/listings.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/listings/lstlang1.sty) (/usr/share/texlive/texmf-dist/tex/latex/titleref/titleref.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/base/makeidx.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/iftex/iftex.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/generic/intcalc/intcalc.sty) (/usr/share/texlive/texmf-dist/tex/generic/etexcmds/etexcmds.sty) (/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/oberdiek/hypcap.sty) Writing index file ProbABEL_manual.idx (/usr/share/texlive/texmf-dist/tex/latex/l3backend/l3backend-pdftex.def) No file ProbABEL_manual.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/hyperref/nameref.sty (/usr/share/texlive/texmf-dist/tex/latex/refcount/refcount.sty) (/usr/share/texlive/texmf-dist/tex/generic/gettitlestring/gettitlestring.sty)) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] (/usr/share/texlive/texmf-dist/tex/latex/base/t1cmtt.fd) [2] Overfull \hbox (7.36137pt too wide) in paragraph at lines 171--174 \T1/cmr/m/n/12 Prob-A-BEL web page ([][]$\T1/cmtt/m/n/12 http : / / www . genab el . org / packages / ProbABEL$[][]\T1/cmr/m/n/12 ). LaTeX Warning: Reference `sec:obtain' on page 3 undefined on input line 181. [3] Overfull \hbox (123.30513pt too wide) in paragraph at lines 238--241 \T1/cmtt/m/n/12 ProbABEL\T1/cmr/m/n/12 . Let's in-stall in a sub-di-rec-tory of your home di-rec-tory, e.g. \T1/cmtt/m/n/12 /home/yourusername/ProbABEL\T1/cmr /m/n/12 : Overfull \hbox (4.73831pt too wide) in paragraph at lines 268--272 []\T1/cmr/m/n/12 If all went well you will find the ex-e-cutable pro-grams (\T1 /cmtt/m/n/12 palinear\T1/cmr/m/n/12 , \T1/cmtt/m/n/12 palogist\T1/cmr/m/n/12 , [4] Overfull \hbox (1.38382pt too wide) in paragraph at lines 274--279 \T1/cmtt/m/n/12 ProbABEL \T1/cmr/m/n/12 takes three files as in-put: a file con -tain-ing SNP in-for-ma-tion (e.g. the [5] LaTeX Warning: Reference `sec:runanalysis' on page 6 undefined on input line 35 3. [6] Overfull \hbox (12.56972pt too wide) in paragraph at lines 377--384 []\T1/cmr/m/n/12 In the case of lin-ear or lo-gis-tic re-gres-sion (pro-grams \ T1/cmtt/m/n/12 palinear \T1/cmr/m/n/12 and \T1/cmtt/m/n/12 palogist\T1/cmr/m/n/ 12 , Overfull \hbox (14.44846pt too wide) in paragraph at lines 377--384 \T1/cmr/m/n/12 lin-ear re-gres-sion anal-y-sis fol-low here (also to be found i n \T1/cmtt/m/n/12 examples/height.txt\T1/cmr/m/n/12 ) [7] [8] Overfull \hbox (5.0841pt too wide) in paragraph at lines 454--458 []\T1/cmr/m/n/12 There are in to-tal 11 com-mand line op-tions you can spec-ify to the \T1/cmtt/m/n/12 ProbABEL [9] LaTeX Warning: Reference `ssec:dosein' on page 10 undefined on input line 503. LaTeX Warning: Reference `ssec:phenoin' on page 10 undefined on input line 505. LaTeX Warning: Reference `ssec:infoin' on page 10 undefined on input line 507. [10] Overfull \hbox (17.4505pt too wide) in paragraph at lines 512--512 []\T1/cmtt/m/n/12 palinear -p height.txt -d gtdata/test.mldose -i gtdata/test.m linfo[] Overfull \hbox (29.79749pt too wide) in paragraph at lines 535--535 []\T1/cmtt/m/n/12 palinear -p height.txt -d gtdata/test.mlprob -i gtdata/test.m linfo \[] Overfull \hbox (54.49146pt too wide) in paragraph at lines 545--545 []\T1/cmtt/m/n/12 palinear -p height.txt -d gtdata/test.mlprob.fvi -i gtdata/te st.mlinfo \[] Package hyperref Warning: Token not allowed in a PDF string (PDFDocEncoding): (hyperref) removing `\lstinline' on input line 550. Overfull \hbox (8.43651pt too wide) in paragraph at lines 552--563 \T1/cmr/m/n/12 covariance ma-trix goes as in-put pa-ram-e-ter with that op-tion , e.g. [][][][] [11] Overfull \hbox (42.14447pt too wide) in paragraph at lines 569--569 [] \T1/cmtt/m/n/12 h2.obj$InvSigma * h2.obj$h2an$estimate[length(h2.obj$h2an$e stimate)][] Package hyperref Warning: Token not allowed in a PDF string (PDFDocEncoding): (hyperref) removing `\lstinline' on input line 585. [12] LaTeX Warning: Reference `sec:allcov' on page 13 undefined on input line 621. Package hyperref Warning: Token not allowed in a PDF string (PDFDocEncoding): (hyperref) removing `\lstinline' on input line 626. Package hyperref Warning: Token not allowed in a PDF string (PDFDocEncoding): (hyperref) removing `\lstinline' on input line 643. Package hyperref Warning: Token not allowed in a PDF string (PDFDocEncoding): (hyperref) removing `\lstinline' on input line 662. LaTeX Warning: Reference `sec:methodology' on page 13 undefined on input line 6 66. [13] [14] Overfull \hbox (4.6171pt too wide) in paragraph at lines 746--750 \T1/cmr/m/n/12 After in-stalling \T1/cmtt/m/n/12 ProbABEL \T1/cmr/m/n/12 you ca n find the \T1/cmtt/m/n/12 prepare_data.R \T1/cmr/m/n/12 file in the \T1/cmtt/m /n/12 scripts [15] [16] Overfull \hbox (8.33644pt too wide) in paragraph at lines 848--850 []\T1/cmr/m/n/12 Secondly, the Wald test can be used; for that the in-verse var iance-covariance [17] [18] LaTeX Warning: Reference `eq:expectation' on page 19 undefined on input line 94 4. LaTeX Warning: Reference `kinship' on page 19 undefined on input line 956. [19] [20] [21] No file ProbABEL_manual.ind. [22] (./ProbABEL_manual.aux) kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ecti1200 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ecti1200 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecti1200.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecti.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/extextit.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exileast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exilwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exilig.mf Ok [25] [26] [27] [28] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exitalp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exillett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exidigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exiligtb.mf Ok) ) ) ) (some charht values had to be adjusted by as much as 0.07143pt) Font metrics written on ecti1200.tfm. Output written on ecti1200.600gf (256 characters, 63048 bytes). Transcript written on ecti1200.log. mktexpk: /build/probabel-0.5.0+dfsg/debian/.debhelper/generated/_source/home/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ecti1200.600pk: successfully generated. LaTeX Warning: There were undefined references. LaTeX Warning: Label(s) may have changed. Rerun to get cross-references right. Package rerunfilecheck Warning: File `ProbABEL_manual.out' has changed. (rerunfilecheck) Rerun to get outlines right (rerunfilecheck) or use package `bookmark'. ) (see the transcript file for additional information) kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ectt1095 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ectt1095 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ectt1095.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ectt.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exroman.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrleast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlig.mf Ok [25] [26] [28] [27] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exromp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrllett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrdigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exmligtb.mf Ok) ) ) ) Font metrics written on ectt1095.tfm. Output written on ectt1095.600gf (256 characters, 47796 bytes). Transcript written on ectt1095.log. mktexpk: /build/probabel-0.5.0+dfsg/debian/.debhelper/generated/_source/home/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ectt1095.600pk: successfully generated. kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ectt1440 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ectt1440 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ectt1440.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ectt.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exroman.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrleast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlig.mf Ok [25] [26] [28] [27] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exromp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrllett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrdigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exmligtb.mf Ok) ) ) ) Font metrics written on ectt1440.tfm. Output written on ectt1440.600gf (256 characters, 61024 bytes). Transcript written on ectt1440.log. mktexpk: /build/probabel-0.5.0+dfsg/debian/.debhelper/generated/_source/home/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ectt1440.600pk: successfully generated. kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ecrm1000 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ecrm1000 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecrm1000.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecrm.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exroman.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrleast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlig.mf Ok [25] [26] [28] [27] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exromp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrllett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrdigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrligtb.mf Ok) ) ) ) (some charht values had to be adjusted by as much as 0.06586pt) Font metrics written on ecrm1000.tfm. Output written on ecrm1000.600gf (256 characters, 51184 bytes). Transcript written on ecrm1000.log. mktexpk: /build/probabel-0.5.0+dfsg/debian/.debhelper/generated/_source/home/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ecrm1000.600pk: successfully generated. kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ecrm0700 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ecrm0700 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecrm0700.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecrm.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exroman.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrleast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlig.mf Ok [25] [26] [28] [27] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exromp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrllett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrdigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrligtb.mf Ok) ) ) ) Font metrics written on ecrm0700.tfm. Output written on ecrm0700.600gf (256 characters, 37344 bytes). Transcript written on ecrm0700.log. mktexpk: /build/probabel-0.5.0+dfsg/debian/.debhelper/generated/_source/home/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ecrm0700.600pk: successfully generated. kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ectt0800 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ectt0800 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ectt0800.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ectt.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exroman.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrleast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlig.mf Ok [25] [26] [28] [27] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exromp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrllett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrdigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exmligtb.mf Ok) ) ) ) Font metrics written on ectt0800.tfm. Output written on ectt0800.600gf (256 characters, 35488 bytes). Transcript written on ectt0800.log. mktexpk: /build/probabel-0.5.0+dfsg/debian/.debhelper/generated/_source/home/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ectt0800.600pk: successfully generated. kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ecbx1200 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ecbx1200 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecbx1200.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecbx.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exroman.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrleast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlig.mf Ok [25] [26] [28] [27] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exromp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrllett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrdigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrligtb.mf Ok) ) ) ) Font metrics written on ecbx1200.tfm. Output written on ecbx1200.600gf (256 characters, 59220 bytes). Transcript written on ecbx1200.log. mktexpk: /build/probabel-0.5.0+dfsg/debian/.debhelper/generated/_source/home/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ecbx1200.600pk: successfully generated. kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ecrm0800 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ecrm0800 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecrm0800.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecrm.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exroman.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrleast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlig.mf Ok [25] [26] [28] [27] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exromp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrllett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrdigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrligtb.mf Ok) ) ) ) (some charht values had to be adjusted by as much as 0.06445pt) Font metrics written on ecrm0800.tfm. Output written on ecrm0800.600gf (256 characters, 41732 bytes). Transcript written on ecrm0800.log. mktexpk: /build/probabel-0.5.0+dfsg/debian/.debhelper/generated/_source/home/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ecrm0800.600pk: successfully generated. kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ectt1000 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ectt1000 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ectt1000.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ectt.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exroman.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrleast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlig.mf Ok [25] [26] [28] [27] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exromp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrllett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrdigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exmligtb.mf Ok) ) ) ) Font metrics written on ectt1000.tfm. Output written on ectt1000.600gf (256 characters, 43832 bytes). Transcript written on ectt1000.log. mktexpk: /build/probabel-0.5.0+dfsg/debian/.debhelper/generated/_source/home/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ectt1000.600pk: successfully generated. kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 tcrm1200 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input tcrm1200 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/tcrm1200.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/tcrm.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/txsymb.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/txpseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/txaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [27] [29]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/txgen.mf Ok [100] [109] [98] [99] [108]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/txsymbol.mf Ok [13] [18] [21] [22] [23] [24] [25] [26] [28] [31] [32] [36] [39] [44] [45] [46] [42] [47] [60] [61] [62] [77] [79] [87] [110] [91] [93] [94] [95] [96] [126] [127] [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [171] [172] [173] [174] [175] [177] [176] [180] [181] [182] [183] [184] [187] [191] [214] [246]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/txromod.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/txrsuper.mf Ok [185] [178] [179] [170] [186]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/txrfract.mf Ok [188] [189] [190]) ) ) ) (some charht values had to be adjusted by as much as 0.06665pt) Font metrics written on tcrm1200.tfm. Output written on tcrm1200.600gf (128 characters, 28032 bytes). Transcript written on tcrm1200.log. mktexpk: /build/probabel-0.5.0+dfsg/debian/.debhelper/generated/_source/home/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/tcrm1200.600pk: successfully generated. kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ecbx1440 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ecbx1440 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecbx1440.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecbx.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exroman.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrleast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlig.mf Ok [25] [26] [28] [27] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exromp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrllett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrdigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrligtb.mf Ok) ) ) ) (some charht values had to be adjusted by as much as 0.10997pt) Font metrics written on ecbx1440.tfm. Output written on ecbx1440.600gf (256 characters, 70764 bytes). Transcript written on ecbx1440.log. mktexpk: /build/probabel-0.5.0+dfsg/debian/.debhelper/generated/_source/home/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ecbx1440.600pk: successfully generated. kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ectt1728 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ectt1728 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ectt1728.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ectt.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exroman.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrleast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlig.mf Ok [25] [26] [28] [27] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exromp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrllett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrdigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exmligtb.mf Ok) ) ) ) Font metrics written on ectt1728.tfm. Output written on ectt1728.600gf (256 characters, 72884 bytes). Transcript written on ectt1728.log. mktexpk: /build/probabel-0.5.0+dfsg/debian/.debhelper/generated/_source/home/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ectt1728.600pk: successfully generated. kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ectt1200 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ectt1200 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ectt1200.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ectt.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exroman.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrleast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlig.mf Ok [25] [26] [28] [27] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exromp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrllett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrdigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exmligtb.mf Ok) ) ) ) Font metrics written on ectt1200.tfm. Output written on ectt1200.600gf (256 characters, 51736 bytes). Transcript written on ectt1200.log. mktexpk: /build/probabel-0.5.0+dfsg/debian/.debhelper/generated/_source/home/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ectt1200.600pk: successfully generated. kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ecrm1200 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ecrm1200 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecrm1200.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecrm.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exroman.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrleast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlig.mf Ok [25] [26] [28] [27] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exromp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrllett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrdigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrligtb.mf Ok) ) ) ) (some charht values had to be adjusted by as much as 0.07143pt) Font metrics written on ecrm1200.tfm. Output written on ecrm1200.600gf (256 characters, 60320 bytes). Transcript written on ecrm1200.log. mktexpk: /build/probabel-0.5.0+dfsg/debian/.debhelper/generated/_source/home/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ecrm1200.600pk: successfully generated. kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ecbx1728 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ecbx1728 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecbx1728.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecbx.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exroman.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrleast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlig.mf Ok [25] [26] [28] [27] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exromp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrllett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrdigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrligtb.mf Ok) ) ) ) (some charht values had to be adjusted by as much as 0.13197pt) Font metrics written on ecbx1728.tfm. Output written on ecbx1728.600gf (256 characters, 84848 bytes). Transcript written on ecbx1728.log. mktexpk: /build/probabel-0.5.0+dfsg/debian/.debhelper/generated/_source/home/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ecbx1728.600pk: successfully generated. kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ecrm1095 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ecrm1095 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecrm1095.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecrm.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exroman.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrleast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlig.mf Ok [25] [26] [28] [27] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exromp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrllett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrdigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrligtb.mf Ok) ) ) ) (some charht values had to be adjusted by as much as 0.07599pt) Font metrics written on ecrm1095.tfm. Output written on ecrm1095.600gf (256 characters, 55424 bytes). Transcript written on ecrm1095.log. mktexpk: /build/probabel-0.5.0+dfsg/debian/.debhelper/generated/_source/home/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ecrm1095.600pk: successfully generated. kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ecrm1440 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ecrm1440 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecrm1440.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecrm.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exroman.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrleast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlig.mf Ok [25] [26] [28] [27] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exromp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrllett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrdigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrligtb.mf Ok) ) ) ) (some charht values had to be adjusted by as much as 0.08084pt) Font metrics written on ecrm1440.tfm. Output written on ecrm1440.600gf (256 characters, 71064 bytes). Transcript written on ecrm1440.log. mktexpk: /build/probabel-0.5.0+dfsg/debian/.debhelper/generated/_source/home/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ecrm1440.600pk: successfully generated. kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ecti1440 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ecti1440 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecti1440.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecti.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/extextit.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exileast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exilwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exilig.mf Ok [25] [26] [27] [28] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exitalp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exillett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exidigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exiligtb.mf Ok) ) ) ) (some charht values had to be adjusted by as much as 0.07997pt) Font metrics written on ecti1440.tfm. Output written on ecti1440.600gf (256 characters, 74296 bytes). Transcript written on ecti1440.log. mktexpk: /build/probabel-0.5.0+dfsg/debian/.debhelper/generated/_source/home/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ecti1440.600pk: successfully generated. kpathsea: Running mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 ecrm2074 mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input ecrm2074 This is METAFONT, Version 2.7182818 (TeX Live 2020/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecrm2074.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/ecrm.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exroman.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exruwest.mf Ok [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] [220] [221] [222] [223]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlwest.mf Ok [224] [225] [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] [240] [241] [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] [252] [253] [254] [255]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrueast.mf Ok [128] [129] [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] [156] [157]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrleast.mf Ok [158] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbraces.mf Ok [94] [126] [23] [40] [41] [60] [124] [62] [91] [93] [92] [123] [125] [95] [127] [32]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/expunct.mf Ok [14] [15] [19] [20] [13] [18] [33] [39] [42] [43] [44] [46] [47] [58] [59] [61] [96] [189] [17] [45] [16] [21] [22]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exsign.mf Ok [24] [34] [35] [36] [37] [64] [191] [159]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrlig.mf Ok [25] [26] [28] [27] [29] [30] [31]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exromp.mf Ok [38] [63] [190]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrulett.mf Ok [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrllett.mf Ok [97] [98] [99] [100] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] [114] [115] [116] [117] [118] [119] [120] [121] [122]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrdigit.mf Ok [48] [49] [50] [51] [52] [53] [54] [55] [56] [57]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exrligtb.mf Ok) ) ) ) (some charht values had to be adjusted by as much as 0.1171pt) Font metrics written on ecrm2074.tfm. Output written on ecrm2074.600gf (256 characters, 101464 bytes). Transcript written on ecrm2074.log. mktexpk: /build/probabel-0.5.0+dfsg/debian/.debhelper/generated/_source/home/.texlive2020/texmf-var/fonts/pk/ljfour/jknappen/ec/ecrm2074.600pk: successfully generated. Output written on ProbABEL_manual.pdf (22 pages, 397935 bytes). Transcript written on ProbABEL_manual.log. diff: .btmp: No such file or directory === Making PDF === pdflatex ./ProbABEL_manual.tex This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./ProbABEL_manual.tex LaTeX2e <2020-10-01> patch level 4 L3 programming layer <2021-01-09> xparse <2020-03-03> (/usr/share/texlive/texmf-dist/tex/latex/base/article.cls Document Class: article 2020/04/10 v1.4m Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/size12.clo)) (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty) (/usr/share/texlive/texmf-dist/tex/latex/xcolor/xcolor.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/xcolor/svgnam.def)) (/usr/share/texlive/texmf-dist/tex/latex/tools/verbatim.sty) (/usr/share/texlive/texmf-dist/tex/latex/listings/listings.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/keyval.sty) (/usr/share/texlive/texmf-dist/tex/latex/listings/lstmisc.sty) (/usr/share/texlive/texmf-dist/tex/latex/listings/listings.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/listings/lstlang1.sty) (/usr/share/texlive/texmf-dist/tex/latex/titleref/titleref.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/base/makeidx.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/iftex/iftex.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/generic/intcalc/intcalc.sty) (/usr/share/texlive/texmf-dist/tex/generic/etexcmds/etexcmds.sty) (/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/oberdiek/hypcap.sty) Writing index file ProbABEL_manual.idx (/usr/share/texlive/texmf-dist/tex/latex/l3backend/l3backend-pdftex.def) (./ProbABEL_manual.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/hyperref/nameref.sty (/usr/share/texlive/texmf-dist/tex/latex/refcount/refcount.sty) (/usr/share/texlive/texmf-dist/tex/generic/gettitlestring/gettitlestring.sty)) (./ProbABEL_manual.out) (./ProbABEL_manual.out) (./ProbABEL_manual.toc (/usr/share/texlive/texmf-dist/tex/latex/base/t1cmtt.fd) [1{/var/lib/texmf/font s/map/pdftex/updmap/pdftex.map}]) [2] [3] Overfull \hbox (7.36137pt too wide) in paragraph at lines 171--174 \T1/cmr/m/n/12 Prob-A-BEL web page ([][]$\T1/cmtt/m/n/12 http : / / www . genab el . org / packages / ProbABEL$[][]\T1/cmr/m/n/12 ). [4] Overfull \hbox (123.30513pt too wide) in paragraph at lines 238--241 \T1/cmtt/m/n/12 ProbABEL\T1/cmr/m/n/12 . Let's in-stall in a sub-di-rec-tory of your home di-rec-tory, e.g. \T1/cmtt/m/n/12 /home/yourusername/ProbABEL\T1/cmr /m/n/12 : Overfull \hbox (4.73831pt too wide) in paragraph at lines 268--272 []\T1/cmr/m/n/12 If all went well you will find the ex-e-cutable pro-grams (\T1 /cmtt/m/n/12 palinear\T1/cmr/m/n/12 , \T1/cmtt/m/n/12 palogist\T1/cmr/m/n/12 , [5] Overfull \hbox (1.38382pt too wide) in paragraph at lines 274--279 \T1/cmtt/m/n/12 ProbABEL \T1/cmr/m/n/12 takes three files as in-put: a file con -tain-ing SNP in-for-ma-tion (e.g. the [6] [7] Overfull \hbox (12.56972pt too wide) in paragraph at lines 377--384 []\T1/cmr/m/n/12 In the case of lin-ear or lo-gis-tic re-gres-sion (pro-grams \ T1/cmtt/m/n/12 palinear \T1/cmr/m/n/12 and \T1/cmtt/m/n/12 palogist\T1/cmr/m/n/ 12 , Overfull \hbox (14.44846pt too wide) in paragraph at lines 377--384 \T1/cmr/m/n/12 lin-ear re-gres-sion anal-y-sis fol-low here (also to be found i n \T1/cmtt/m/n/12 examples/height.txt\T1/cmr/m/n/12 ) [8] [9] Overfull \hbox (5.0841pt too wide) in paragraph at lines 454--458 []\T1/cmr/m/n/12 There are in to-tal 11 com-mand line op-tions you can spec-ify to the \T1/cmtt/m/n/12 ProbABEL [10] [11] Overfull \hbox (17.4505pt too wide) in paragraph at lines 512--512 []\T1/cmtt/m/n/12 palinear -p height.txt -d gtdata/test.mldose -i gtdata/test.m linfo[] Overfull \hbox (29.79749pt too wide) in paragraph at lines 535--535 []\T1/cmtt/m/n/12 palinear -p height.txt -d gtdata/test.mlprob -i gtdata/test.m linfo \[] Overfull \hbox (54.49146pt too wide) in paragraph at lines 545--545 []\T1/cmtt/m/n/12 palinear -p height.txt -d gtdata/test.mlprob.fvi -i gtdata/te st.mlinfo \[] Package hyperref Warning: Token not allowed in a PDF string (PDFDocEncoding): (hyperref) removing `\lstinline' on input line 550. Overfull \hbox (8.43651pt too wide) in paragraph at lines 552--563 \T1/cmr/m/n/12 covariance ma-trix goes as in-put pa-ram-e-ter with that op-tion , e.g. [][][][] [12] Overfull \hbox (42.14447pt too wide) in paragraph at lines 569--569 [] \T1/cmtt/m/n/12 h2.obj$InvSigma * h2.obj$h2an$estimate[length(h2.obj$h2an$e stimate)][] Package hyperref Warning: Token not allowed in a PDF string (PDFDocEncoding): (hyperref) removing `\lstinline' on input line 585. [13] Package hyperref Warning: Token not allowed in a PDF string (PDFDocEncoding): (hyperref) removing `\lstinline' on input line 626. Package hyperref Warning: Token not allowed in a PDF string (PDFDocEncoding): (hyperref) removing `\lstinline' on input line 643. Package hyperref Warning: Token not allowed in a PDF string (PDFDocEncoding): (hyperref) removing `\lstinline' on input line 662. [14] [15] Overfull \hbox (4.6171pt too wide) in paragraph at lines 746--750 \T1/cmr/m/n/12 After in-stalling \T1/cmtt/m/n/12 ProbABEL \T1/cmr/m/n/12 you ca n find the \T1/cmtt/m/n/12 prepare_data.R \T1/cmr/m/n/12 file in the \T1/cmtt/m /n/12 scripts [16] [17] Overfull \hbox (8.33644pt too wide) in paragraph at lines 848--850 []\T1/cmr/m/n/12 Secondly, the Wald test can be used; for that the in-verse var iance-covariance [18] [19] [20] [21] [22] No file ProbABEL_manual.ind. [23] (./ProbABEL_manual.aux) LaTeX Warning: Label(s) may have changed. Rerun to get cross-references right. ) (see the transcript file for additional information) Output written on ProbABEL_manual.pdf (23 pages, 404417 bytes). Transcript written on ProbABEL_manual.log. LaTeX Warning: Label(s) may have changed. Rerun to get cross-references right. ** Re-running LaTeX ** This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./ProbABEL_manual.tex LaTeX2e <2020-10-01> patch level 4 L3 programming layer <2021-01-09> xparse <2020-03-03> (/usr/share/texlive/texmf-dist/tex/latex/base/article.cls Document Class: article 2020/04/10 v1.4m Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/size12.clo)) (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty) (/usr/share/texlive/texmf-dist/tex/latex/xcolor/xcolor.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/xcolor/svgnam.def)) (/usr/share/texlive/texmf-dist/tex/latex/tools/verbatim.sty) (/usr/share/texlive/texmf-dist/tex/latex/listings/listings.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/keyval.sty) (/usr/share/texlive/texmf-dist/tex/latex/listings/lstmisc.sty) (/usr/share/texlive/texmf-dist/tex/latex/listings/listings.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/listings/lstlang1.sty) (/usr/share/texlive/texmf-dist/tex/latex/titleref/titleref.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/base/makeidx.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/iftex/iftex.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/generic/intcalc/intcalc.sty) (/usr/share/texlive/texmf-dist/tex/generic/etexcmds/etexcmds.sty) (/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/oberdiek/hypcap.sty) Writing index file ProbABEL_manual.idx (/usr/share/texlive/texmf-dist/tex/latex/l3backend/l3backend-pdftex.def) (./ProbABEL_manual.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/hyperref/nameref.sty (/usr/share/texlive/texmf-dist/tex/latex/refcount/refcount.sty) (/usr/share/texlive/texmf-dist/tex/generic/gettitlestring/gettitlestring.sty)) (./ProbABEL_manual.out) (./ProbABEL_manual.out) (./ProbABEL_manual.toc (/usr/share/texlive/texmf-dist/tex/latex/base/t1cmtt.fd) [1{/var/lib/texmf/font s/map/pdftex/updmap/pdftex.map}]) [2] [3] Overfull \hbox (7.36137pt too wide) in paragraph at lines 171--174 \T1/cmr/m/n/12 Prob-A-BEL web page ([][]$\T1/cmtt/m/n/12 http : / / www . genab el . org / packages / ProbABEL$[][]\T1/cmr/m/n/12 ). [4] Overfull \hbox (123.30513pt too wide) in paragraph at lines 238--241 \T1/cmtt/m/n/12 ProbABEL\T1/cmr/m/n/12 . Let's in-stall in a sub-di-rec-tory of your home di-rec-tory, e.g. \T1/cmtt/m/n/12 /home/yourusername/ProbABEL\T1/cmr /m/n/12 : Overfull \hbox (4.73831pt too wide) in paragraph at lines 268--272 []\T1/cmr/m/n/12 If all went well you will find the ex-e-cutable pro-grams (\T1 /cmtt/m/n/12 palinear\T1/cmr/m/n/12 , \T1/cmtt/m/n/12 palogist\T1/cmr/m/n/12 , [5] Overfull \hbox (1.38382pt too wide) in paragraph at lines 274--279 \T1/cmtt/m/n/12 ProbABEL \T1/cmr/m/n/12 takes three files as in-put: a file con -tain-ing SNP in-for-ma-tion (e.g. the [6] [7] Overfull \hbox (12.56972pt too wide) in paragraph at lines 377--384 []\T1/cmr/m/n/12 In the case of lin-ear or lo-gis-tic re-gres-sion (pro-grams \ T1/cmtt/m/n/12 palinear \T1/cmr/m/n/12 and \T1/cmtt/m/n/12 palogist\T1/cmr/m/n/ 12 , Overfull \hbox (14.44846pt too wide) in paragraph at lines 377--384 \T1/cmr/m/n/12 lin-ear re-gres-sion anal-y-sis fol-low here (also to be found i n \T1/cmtt/m/n/12 examples/height.txt\T1/cmr/m/n/12 ) [8] [9] Overfull \hbox (5.0841pt too wide) in paragraph at lines 454--458 []\T1/cmr/m/n/12 There are in to-tal 11 com-mand line op-tions you can spec-ify to the \T1/cmtt/m/n/12 ProbABEL [10] [11] Overfull \hbox (17.4505pt too wide) in paragraph at lines 512--512 []\T1/cmtt/m/n/12 palinear -p height.txt -d gtdata/test.mldose -i gtdata/test.m linfo[] Overfull \hbox (29.79749pt too wide) in paragraph at lines 535--535 []\T1/cmtt/m/n/12 palinear -p height.txt -d gtdata/test.mlprob -i gtdata/test.m linfo \[] Overfull \hbox (54.49146pt too wide) in paragraph at lines 545--545 []\T1/cmtt/m/n/12 palinear -p height.txt -d gtdata/test.mlprob.fvi -i gtdata/te st.mlinfo \[] Package hyperref Warning: Token not allowed in a PDF string (PDFDocEncoding): (hyperref) removing `\lstinline' on input line 550. Overfull \hbox (8.43651pt too wide) in paragraph at lines 552--563 \T1/cmr/m/n/12 covariance ma-trix goes as in-put pa-ram-e-ter with that op-tion , e.g. [][][][] [12] Overfull \hbox (42.14447pt too wide) in paragraph at lines 569--569 [] \T1/cmtt/m/n/12 h2.obj$InvSigma * h2.obj$h2an$estimate[length(h2.obj$h2an$e stimate)][] Package hyperref Warning: Token not allowed in a PDF string (PDFDocEncoding): (hyperref) removing `\lstinline' on input line 585. [13] Package hyperref Warning: Token not allowed in a PDF string (PDFDocEncoding): (hyperref) removing `\lstinline' on input line 626. Package hyperref Warning: Token not allowed in a PDF string (PDFDocEncoding): (hyperref) removing `\lstinline' on input line 643. Package hyperref Warning: Token not allowed in a PDF string (PDFDocEncoding): (hyperref) removing `\lstinline' on input line 662. [14] [15] Overfull \hbox (4.6171pt too wide) in paragraph at lines 746--750 \T1/cmr/m/n/12 After in-stalling \T1/cmtt/m/n/12 ProbABEL \T1/cmr/m/n/12 you ca n find the \T1/cmtt/m/n/12 prepare_data.R \T1/cmr/m/n/12 file in the \T1/cmtt/m /n/12 scripts [16] [17] Overfull \hbox (8.33644pt too wide) in paragraph at lines 848--850 []\T1/cmr/m/n/12 Secondly, the Wald test can be used; for that the in-verse var iance-covariance [18] [19] [20] [21] [22] No file ProbABEL_manual.ind. [23] (./ProbABEL_manual.aux) ) (see the transcript file for additional information) Output written on ProbABEL_manual.pdf (23 pages, 404419 bytes). Transcript written on ProbABEL_manual.log. === Making index === makeindex ProbABEL_manual This is makeindex, version 2.15 [TeX Live 2020] (kpathsea + Thai support). Scanning input file ProbABEL_manual.idx....done (3 entries accepted, 0 rejected). Sorting entries....done (4 comparisons). Generating output file ProbABEL_manual.ind....done (14 lines written, 0 warnings). Output written in ProbABEL_manual.ind. Transcript written in ProbABEL_manual.ilg. === Making final PDF === pdflatex ./ProbABEL_manual.tex This is pdfTeX, Version 3.14159265-2.6-1.40.21 (TeX Live 2020/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./ProbABEL_manual.tex LaTeX2e <2020-10-01> patch level 4 L3 programming layer <2021-01-09> xparse <2020-03-03> (/usr/share/texlive/texmf-dist/tex/latex/base/article.cls Document Class: article 2020/04/10 v1.4m Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/size12.clo)) (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty) (/usr/share/texlive/texmf-dist/tex/latex/xcolor/xcolor.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/xcolor/svgnam.def)) (/usr/share/texlive/texmf-dist/tex/latex/tools/verbatim.sty) (/usr/share/texlive/texmf-dist/tex/latex/listings/listings.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/keyval.sty) (/usr/share/texlive/texmf-dist/tex/latex/listings/lstmisc.sty) (/usr/share/texlive/texmf-dist/tex/latex/listings/listings.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/listings/lstlang1.sty) (/usr/share/texlive/texmf-dist/tex/latex/titleref/titleref.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/base/makeidx.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/iftex/iftex.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/generic/intcalc/intcalc.sty) (/usr/share/texlive/texmf-dist/tex/generic/etexcmds/etexcmds.sty) (/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/oberdiek/hypcap.sty) Writing index file ProbABEL_manual.idx (/usr/share/texlive/texmf-dist/tex/latex/l3backend/l3backend-pdftex.def) (./ProbABEL_manual.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/hyperref/nameref.sty (/usr/share/texlive/texmf-dist/tex/latex/refcount/refcount.sty) (/usr/share/texlive/texmf-dist/tex/generic/gettitlestring/gettitlestring.sty)) (./ProbABEL_manual.out) (./ProbABEL_manual.out) (./ProbABEL_manual.toc (/usr/share/texlive/texmf-dist/tex/latex/base/t1cmtt.fd) [1{/var/lib/texmf/font s/map/pdftex/updmap/pdftex.map}]) [2] [3] Overfull \hbox (7.36137pt too wide) in paragraph at lines 171--174 \T1/cmr/m/n/12 Prob-A-BEL web page ([][]$\T1/cmtt/m/n/12 http : / / www . genab el . org / packages / ProbABEL$[][]\T1/cmr/m/n/12 ). [4] Overfull \hbox (123.30513pt too wide) in paragraph at lines 238--241 \T1/cmtt/m/n/12 ProbABEL\T1/cmr/m/n/12 . Let's in-stall in a sub-di-rec-tory of your home di-rec-tory, e.g. \T1/cmtt/m/n/12 /home/yourusername/ProbABEL\T1/cmr /m/n/12 : Overfull \hbox (4.73831pt too wide) in paragraph at lines 268--272 []\T1/cmr/m/n/12 If all went well you will find the ex-e-cutable pro-grams (\T1 /cmtt/m/n/12 palinear\T1/cmr/m/n/12 , \T1/cmtt/m/n/12 palogist\T1/cmr/m/n/12 , [5] Overfull \hbox (1.38382pt too wide) in paragraph at lines 274--279 \T1/cmtt/m/n/12 ProbABEL \T1/cmr/m/n/12 takes three files as in-put: a file con -tain-ing SNP in-for-ma-tion (e.g. the [6] [7] Overfull \hbox (12.56972pt too wide) in paragraph at lines 377--384 []\T1/cmr/m/n/12 In the case of lin-ear or lo-gis-tic re-gres-sion (pro-grams \ T1/cmtt/m/n/12 palinear \T1/cmr/m/n/12 and \T1/cmtt/m/n/12 palogist\T1/cmr/m/n/ 12 , Overfull \hbox (14.44846pt too wide) in paragraph at lines 377--384 \T1/cmr/m/n/12 lin-ear re-gres-sion anal-y-sis fol-low here (also to be found i n \T1/cmtt/m/n/12 examples/height.txt\T1/cmr/m/n/12 ) [8] [9] Overfull \hbox (5.0841pt too wide) in paragraph at lines 454--458 []\T1/cmr/m/n/12 There are in to-tal 11 com-mand line op-tions you can spec-ify to the \T1/cmtt/m/n/12 ProbABEL [10] [11] Overfull \hbox (17.4505pt too wide) in paragraph at lines 512--512 []\T1/cmtt/m/n/12 palinear -p height.txt -d gtdata/test.mldose -i gtdata/test.m linfo[] Overfull \hbox (29.79749pt too wide) in paragraph at lines 535--535 []\T1/cmtt/m/n/12 palinear -p height.txt -d gtdata/test.mlprob -i gtdata/test.m linfo \[] Overfull \hbox (54.49146pt too wide) in paragraph at lines 545--545 []\T1/cmtt/m/n/12 palinear -p height.txt -d gtdata/test.mlprob.fvi -i gtdata/te st.mlinfo \[] Package hyperref Warning: Token not allowed in a PDF string (PDFDocEncoding): (hyperref) removing `\lstinline' on input line 550. Overfull \hbox (8.43651pt too wide) in paragraph at lines 552--563 \T1/cmr/m/n/12 covariance ma-trix goes as in-put pa-ram-e-ter with that op-tion , e.g. [][][][] [12] Overfull \hbox (42.14447pt too wide) in paragraph at lines 569--569 [] \T1/cmtt/m/n/12 h2.obj$InvSigma * h2.obj$h2an$estimate[length(h2.obj$h2an$e stimate)][] Package hyperref Warning: Token not allowed in a PDF string (PDFDocEncoding): (hyperref) removing `\lstinline' on input line 585. [13] Package hyperref Warning: Token not allowed in a PDF string (PDFDocEncoding): (hyperref) removing `\lstinline' on input line 626. Package hyperref Warning: Token not allowed in a PDF string (PDFDocEncoding): (hyperref) removing `\lstinline' on input line 643. Package hyperref Warning: Token not allowed in a PDF string (PDFDocEncoding): (hyperref) removing `\lstinline' on input line 662. [14] [15] Overfull \hbox (4.6171pt too wide) in paragraph at lines 746--750 \T1/cmr/m/n/12 After in-stalling \T1/cmtt/m/n/12 ProbABEL \T1/cmr/m/n/12 you ca n find the \T1/cmtt/m/n/12 prepare_data.R \T1/cmr/m/n/12 file in the \T1/cmtt/m /n/12 scripts [16] [17] Overfull \hbox (8.33644pt too wide) in paragraph at lines 848--850 []\T1/cmr/m/n/12 Secondly, the Wald test can be used; for that the in-verse var iance-covariance [18] [19] [20] [21] [22] (./ProbABEL_manual.ind [23] [24]) (./ProbABEL_manual.aux) ) (see the transcript file for additional information) Output written on ProbABEL_manual.pdf (24 pages, 405375 bytes). Transcript written on ProbABEL_manual.log. rm ProbABEL_manual.aux make[2]: Leaving directory '/build/probabel-0.5.0+dfsg/doc' Making all in checks make[2]: Entering directory '/build/probabel-0.5.0+dfsg/checks' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/build/probabel-0.5.0+dfsg/checks' Making all in examples make[2]: Entering directory '/build/probabel-0.5.0+dfsg/examples' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/build/probabel-0.5.0+dfsg/examples' Making all in checks/R-tests make[2]: Entering directory '/build/probabel-0.5.0+dfsg/checks/R-tests' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/build/probabel-0.5.0+dfsg/checks/R-tests' make[2]: Entering directory '/build/probabel-0.5.0+dfsg' make[2]: Nothing to be done for 'all-am'. make[2]: Leaving directory '/build/probabel-0.5.0+dfsg' make[1]: Leaving directory '/build/probabel-0.5.0+dfsg' dh_auto_test make -j18 check VERBOSE=1 make[1]: Entering directory '/build/probabel-0.5.0+dfsg' Making check in src make[2]: Entering directory '/build/probabel-0.5.0+dfsg/src' make[2]: Leaving directory '/build/probabel-0.5.0+dfsg/src' Making check in doc make[2]: Entering directory '/build/probabel-0.5.0+dfsg/doc' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/build/probabel-0.5.0+dfsg/doc' Making check in checks make[2]: Entering directory '/build/probabel-0.5.0+dfsg/checks' make check_probabel_chunk.sh check_dose_input.sh test_qt.sh test_mms.sh test_flipmaf_palinear.sh test_bt.sh test_flipmaf_palogist.sh test_cox.sh test_cox_nocovar.sh test_cox_interactions.sh test_flipmaf_pacoxph.sh make[3]: Entering directory '/build/probabel-0.5.0+dfsg/checks' make[3]: Nothing to be done for 'check_probabel_chunk.sh'. make[3]: Nothing to be done for 'check_dose_input.sh'. make[3]: Nothing to be done for 'test_qt.sh'. make[3]: Nothing to be done for 'test_mms.sh'. make[3]: Nothing to be done for 'test_flipmaf_palinear.sh'. make[3]: Nothing to be done for 'test_bt.sh'. make[3]: Nothing to be done for 'test_flipmaf_palogist.sh'. make[3]: Nothing to be done for 'test_cox.sh'. make[3]: Nothing to be done for 'test_cox_nocovar.sh'. make[3]: Nothing to be done for 'test_cox_interactions.sh'. make[3]: Nothing to be done for 'test_flipmaf_pacoxph.sh'. make[3]: Leaving directory '/build/probabel-0.5.0+dfsg/checks' make check-TESTS make[3]: Entering directory '/build/probabel-0.5.0+dfsg/checks' make[4]: Entering directory '/build/probabel-0.5.0+dfsg/checks' PASS: check_dose_input.sh PASS: test_bt.sh PASS: test_cox_interactions.sh PASS: test_cox.sh PASS: test_cox_nocovar.sh PASS: test_qt.sh PASS: test_flipmaf_palogist.sh PASS: test_flipmaf_palinear.sh PASS: test_flipmaf_pacoxph.sh PASS: check_probabel_chunk.sh PASS: test_mms.sh ============================================================================ Testsuite summary for ProbABEL 0.5.0 ============================================================================ # TOTAL: 11 # PASS: 11 # SKIP: 0 # XFAIL: 0 # FAIL: 0 # XPASS: 0 # ERROR: 0 ============================================================================ make[4]: Leaving directory '/build/probabel-0.5.0+dfsg/checks' make[3]: Leaving directory '/build/probabel-0.5.0+dfsg/checks' make[2]: Leaving directory '/build/probabel-0.5.0+dfsg/checks' Making check in examples make[2]: Entering directory '/build/probabel-0.5.0+dfsg/examples' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/build/probabel-0.5.0+dfsg/examples' Making check in checks/R-tests make[2]: Entering directory '/build/probabel-0.5.0+dfsg/checks/R-tests' make make[3]: Entering directory '/build/probabel-0.5.0+dfsg/checks/R-tests' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/probabel-0.5.0+dfsg/checks/R-tests' make check-TESTS make[3]: Entering directory '/build/probabel-0.5.0+dfsg/checks/R-tests' make[4]: Entering directory '/build/probabel-0.5.0+dfsg/checks/R-tests' ============================================================================ Testsuite summary for ProbABEL 0.5.0 ============================================================================ # TOTAL: 0 # PASS: 0 # SKIP: 0 # XFAIL: 0 # FAIL: 0 # XPASS: 0 # ERROR: 0 ============================================================================ make[4]: Leaving directory '/build/probabel-0.5.0+dfsg/checks/R-tests' make[3]: Leaving directory '/build/probabel-0.5.0+dfsg/checks/R-tests' make[2]: Leaving directory '/build/probabel-0.5.0+dfsg/checks/R-tests' make[2]: Entering directory '/build/probabel-0.5.0+dfsg' make[2]: Nothing to be done for 'check-am'. make[2]: Leaving directory '/build/probabel-0.5.0+dfsg' make[1]: Leaving directory '/build/probabel-0.5.0+dfsg' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install make -j18 install DESTDIR=/build/probabel-0.5.0\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/probabel-0.5.0+dfsg' Making install in src make[2]: Entering directory '/build/probabel-0.5.0+dfsg/src' make[3]: Entering directory '/build/probabel-0.5.0+dfsg/src' /usr/bin/mkdir -p '/build/probabel-0.5.0+dfsg/debian/tmp/usr/bin' /usr/bin/mkdir -p '/build/probabel-0.5.0+dfsg/debian/tmp/usr/bin' /usr/bin/mkdir -p '/build/probabel-0.5.0+dfsg/debian/tmp/etc' /usr/bin/mkdir -p '/build/probabel-0.5.0+dfsg/debian/tmp/usr/share/probabel/scripts' /usr/bin/install -c probabel '/build/probabel-0.5.0+dfsg/debian/tmp/usr/bin' /usr/bin/install -c palinear palogist pacoxph '/build/probabel-0.5.0+dfsg/debian/tmp/usr/bin' /usr/bin/install -c -m 644 probabel_config.cfg.example '/build/probabel-0.5.0+dfsg/debian/tmp/etc' /usr/bin/install -c -m 644 prepare_data.R extIDS.pl '/build/probabel-0.5.0+dfsg/debian/tmp/usr/share/probabel/scripts' make install-data-hook make[4]: Entering directory '/build/probabel-0.5.0+dfsg/src' chmod a+rx /build/probabel-0.5.0+dfsg/debian/tmp//usr/share/probabel/scripts/extIDS.pl make[4]: Leaving directory '/build/probabel-0.5.0+dfsg/src' make install-exec-hook make[4]: Entering directory '/build/probabel-0.5.0+dfsg/src' /usr/bin/sed -i -e "s;probabel_config.cfg;/etc/probabel_config.cfg;" \ /build/probabel-0.5.0+dfsg/debian/tmp/usr/bin/probabel /usr/bin/sed -i -e "s;\./;/usr/bin/;" /build/probabel-0.5.0+dfsg/debian/tmp/usr/bin/probabel /usr/bin/sed -i -e "s;PROBABEL_VERSION;0.5.0;" /build/probabel-0.5.0+dfsg/debian/tmp/usr/bin/probabel ln -s /build/probabel-0.5.0+dfsg/debian/tmp/usr/bin/probabel /build/probabel-0.5.0+dfsg/debian/tmp/usr/bin/probabel.pl make[4]: Leaving directory '/build/probabel-0.5.0+dfsg/src' make[3]: Leaving directory '/build/probabel-0.5.0+dfsg/src' make[2]: Leaving directory '/build/probabel-0.5.0+dfsg/src' Making install in doc make[2]: Entering directory '/build/probabel-0.5.0+dfsg/doc' make[3]: Entering directory '/build/probabel-0.5.0+dfsg/doc' make[3]: Nothing to be done for 'install-exec-am'. /usr/bin/mkdir -p '/build/probabel-0.5.0+dfsg/debian/tmp/usr/share/doc/probabel' /usr/bin/mkdir -p '/build/probabel-0.5.0+dfsg/debian/tmp/usr/share/doc/probabel' /usr/bin/mkdir -p '/build/probabel-0.5.0+dfsg/debian/tmp/usr/share/man/man1' /usr/bin/install -c -m 644 ProbABEL_manual.pdf '/build/probabel-0.5.0+dfsg/debian/tmp/usr/share/doc/probabel' /usr/bin/install -c -m 644 ProbABEL_manual.tex QuickStart.txt short_coxph_data.txt short_height_base_add.out.txt.save short_height.txt short_logist_data.txt short_test.mldose test.map test.mlinfo test_regression.R COPYING LICENSE INSTALL ChangeLog TODO '/build/probabel-0.5.0+dfsg/debian/tmp/usr/share/doc/probabel' /usr/bin/install -c -m 644 probabel.1 probabel.pl.1 palinear.1 palogist.1 pacoxph.1 '/build/probabel-0.5.0+dfsg/debian/tmp/usr/share/man/man1' make[3]: Leaving directory '/build/probabel-0.5.0+dfsg/doc' make[2]: Leaving directory '/build/probabel-0.5.0+dfsg/doc' Making install in checks make[2]: Entering directory '/build/probabel-0.5.0+dfsg/checks' make[3]: Entering directory '/build/probabel-0.5.0+dfsg/checks' make[3]: Nothing to be done for 'install-exec-am'. make[3]: Nothing to be done for 'install-data-am'. make[3]: Leaving directory '/build/probabel-0.5.0+dfsg/checks' make[2]: Leaving directory '/build/probabel-0.5.0+dfsg/checks' Making install in examples make[2]: Entering directory '/build/probabel-0.5.0+dfsg/examples' make[3]: Entering directory '/build/probabel-0.5.0+dfsg/examples' make[3]: Nothing to be done for 'install-exec-am'. /usr/bin/mkdir -p '/build/probabel-0.5.0+dfsg/debian/tmp/usr/share/probabel/examples' /usr/bin/mkdir -p '/build/probabel-0.5.0+dfsg/debian/tmp/usr/share/probabel/examples' /usr/bin/mkdir -p '/build/probabel-0.5.0+dfsg/debian/tmp/usr/share/probabel/examples/gtdata' /usr/bin/install -c -m 644 height.txt logist_data.txt mmscore_pheno.PHE coxph_data.txt mmscore.R mmscore_InvSigma_aj.sex.age.dat README '/build/probabel-0.5.0+dfsg/debian/tmp/usr/share/probabel/examples' /usr/bin/install -c example_qt.sh example_bt.sh example_cox.sh example_mmscore.sh '/build/probabel-0.5.0+dfsg/debian/tmp/usr/share/probabel/examples' /usr/bin/install -c -m 644 gtdata/test.mldose gtdata/test.mlprob gtdata/test.mlinfo gtdata/test.map gtdata/test.dose.fvi gtdata/test.dose.fvd gtdata/test.prob.fvi gtdata/test.prob.fvd gtdata/mmscore_gen.mlinfo gtdata/mmscore_gen.mldose gtdata/mmscore_gen.mlprob gtdata/mmscore_gen.dose.fvi gtdata/mmscore_gen.dose.fvd gtdata/mmscore_gen.prob.fvi gtdata/mmscore_gen.prob.fvd '/build/probabel-0.5.0+dfsg/debian/tmp/usr/share/probabel/examples/gtdata' make[3]: Leaving directory '/build/probabel-0.5.0+dfsg/examples' make[2]: Leaving directory '/build/probabel-0.5.0+dfsg/examples' Making install in checks/R-tests make[2]: Entering directory '/build/probabel-0.5.0+dfsg/checks/R-tests' make[3]: Entering directory '/build/probabel-0.5.0+dfsg/checks/R-tests' make[3]: Nothing to be done for 'install-exec-am'. make[3]: Nothing to be done for 'install-data-am'. make[3]: Leaving directory '/build/probabel-0.5.0+dfsg/checks/R-tests' make[2]: Leaving directory '/build/probabel-0.5.0+dfsg/checks/R-tests' make[2]: Entering directory '/build/probabel-0.5.0+dfsg' make[3]: Entering directory '/build/probabel-0.5.0+dfsg' make[3]: Nothing to be done for 'install-exec-am'. make[3]: Nothing to be done for 'install-data-am'. make[3]: Leaving directory '/build/probabel-0.5.0+dfsg' make[2]: Leaving directory '/build/probabel-0.5.0+dfsg' make[1]: Leaving directory '/build/probabel-0.5.0+dfsg' debian/rules override_dh_install-arch make[1]: Entering directory '/build/probabel-0.5.0+dfsg' dh_install -a rm debian/probabel/usr/bin/probabel.pl mv debian/probabel/etc/probabel_config.cfg.example debian/probabel/etc/probabel_config.cfg make[1]: Leaving directory '/build/probabel-0.5.0+dfsg' dh_install -Nprobabel debian/rules override_dh_installdocs-arch make[1]: Entering directory '/build/probabel-0.5.0+dfsg' dh_installdocs -a rm debian/probabel/usr/share/doc/probabel/COPYING rm debian/probabel/usr/share/doc/probabel/INSTALL rm debian/probabel/usr/share/doc/probabel/LICENSE rm debian/probabel/usr/share/doc/probabel/ChangeLog make[1]: Leaving directory '/build/probabel-0.5.0+dfsg' debian/rules override_dh_installdocs-indep make[1]: Entering directory '/build/probabel-0.5.0+dfsg' dh_installdocs -i make[1]: Leaving directory '/build/probabel-0.5.0+dfsg' debian/rules override_dh_installchangelogs make[1]: Entering directory '/build/probabel-0.5.0+dfsg' dh_installchangelogs doc/ChangeLog make[1]: Leaving directory '/build/probabel-0.5.0+dfsg' dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'probabel' in '../probabel_0.5.0+dfsg-4_i386.deb'. dpkg-deb: building package 'probabel-dbgsym' in '../probabel-dbgsym_0.5.0+dfsg-4_i386.deb'. dpkg-deb: building package 'probabel-examples' in '../probabel-examples_0.5.0+dfsg-4_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../probabel_0.5.0+dfsg-4_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/44884/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/44884/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/44884 and its subdirectories I: Current time: Fri Jul 29 09:39:33 +14 2022 I: pbuilder-time-stamp: 1659037173