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Bug 688674 - [sage-on-gentoo overlay] sci-mathematics/flint-2.5.2-r1 - ! ==> Fatal error occurred, no output PDF file produced!
Summary: [sage-on-gentoo overlay] sci-mathematics/flint-2.5.2-r1 - ! ==> Fatal error ...
Status: UNCONFIRMED
Alias: None
Product: Gentoo Linux
Classification: Unclassified
Component: Overlays (show other bugs)
Hardware: All Linux
: Normal normal (vote)
Assignee: François Bissey
URL: https://github.com/cschwan/sage-on-ge...
Whiteboard:
Keywords:
Depends on:
Blocks:
 
Reported: 2019-06-25 13:31 UTC by Juergen Rose
Modified: 2019-06-26 00:31 UTC (History)
2 users (show)

See Also:
Package list:
Runtime testing required: ---


Attachments
build.log (build.log,896.82 KB, text/plain)
2019-06-25 13:31 UTC, Juergen Rose
Details

Note You need to log in before you can comment on or make changes to this bug.
Description Juergen Rose 2019-06-25 13:31:00 UTC
Created attachment 580740 [details]
build.log

'MAKEOPTS=-j1 emerge -v1 flint' fails with:
...
! Package inputenc Error: Unicode character × (U+00D7)
(inputenc)                not set up for use with LaTeX.

See the inputenc package documentation for explanation.
Type  H <return>  for immediate help.
 ...                                              
                                                  
l.1484     the $m$ ×
                      $n$ matrix \code{A}. Dimensions must be compatible.
? 
! Emergency stop.
 ...                                              
                                                  
l.1484     the $m$ ×
                      $n$ matrix \code{A}. Dimensions must be compatible.
!  ==> Fatal error occurred, no output PDF file produced!
Transcript written on flint-manual.log.



root@impala:/usr/local/portage/dev-util(79)# emerge --info '=sci-mathematics/flint-2.5.2-r1::sage-on-gentoo'
Portage 2.3.67 (python 3.6.8-final-0, default/linux/amd64/17.1, gcc-9.1.0, glibc-2.29-r2, 5.1.10-gentoo x86_64)
=================================================================
                         System Settings
=================================================================
System uname: Linux-5.1.10-gentoo-x86_64-AMD_Phenom-tm-_II_X4_965_Processor-with-gentoo-2.6
KiB Mem:     8150096 total,   3430708 free
KiB Swap:   50331640 total,  49267448 free
Timestamp of repository gentoo: Tue, 25 Jun 2019 07:30:01 +0000
Head commit of repository gentoo: 61903301d2c718c9b26c4e79414ac3fbc6bce049
sh bash 5.0_p7
ld GNU ld (Gentoo 2.32 p2) 2.32.0
distcc[29732] (dcc_trace_version) distcc 3.3.2 x86_64-pc-linux-gnu; built Mar 17 2019 22:29:03 [disabled]
app-shells/bash:          5.0_p7::gentoo
dev-java/java-config:     2.2.0-r4::gentoo
dev-lang/perl:            5.30.0::gentoo
dev-lang/python:          2.7.16-r100::sage-on-gentoo, 3.6.8::gentoo, 3.7.3::gentoo
dev-util/cmake:           3.14.5::gentoo
dev-util/pkgconfig:       0.29.2::gentoo
sys-apps/baselayout:      2.6-r1::gentoo
sys-apps/sandbox:         2.17::gentoo
sys-devel/autoconf:       2.13-r1::gentoo, 2.69-r4::gentoo
sys-devel/automake:       1.11.6-r3::gentoo, 1.13.4-r2::gentoo, 1.16.1-r1::gentoo
sys-devel/binutils:       2.32-r1::gentoo
sys-devel/gcc:            9.1.0-r1::gentoo
sys-devel/gcc-config:     2.0::gentoo
sys-devel/libtool:        2.4.6-r5::gentoo
sys-devel/make:           4.2.1-r4::gentoo
sys-kernel/linux-headers: 5.1::gentoo (virtual/os-headers)
sys-libs/glibc:           2.29-r2::gentoo
Repositories:

gentoo
    location: /usr/portage_impala
    sync-type: rsync
    sync-uri: rsync://rsync.gentoo.org/gentoo-portage
    priority: -1000
    sync-rsync-verify-jobs: 1
    sync-rsync-verify-metamanifest: yes
    sync-rsync-extra-opts: 
    sync-rsync-verify-max-age: 24

x-portage
    location: /usr/local/portage
    masters: gentoo
    priority: 0

g-cpan
    location: /var/lib/cpan
    masters: gentoo
    priority: 1

ago
    location: /var/lib/layman/ago
    masters: gentoo
    priority: 50

haskell
    location: /var/lib/layman/haskell
    masters: gentoo
    priority: 50

imaging
    location: /var/lib/layman/imaging
    masters: gentoo
    priority: 50

sage-on-gentoo
    location: /var/lib/layman/sage-on-gentoo
    masters: gentoo science
    priority: 50

science
    location: /var/lib/layman/science
    masters: gentoo
    priority: 50

x11
    location: /var/lib/layman/x11
    masters: gentoo
    priority: 50

ACCEPT_KEYWORDS="amd64 ~amd64"
ACCEPT_LICENSE="@FREE freedist free-noncomm fairuse linux-firmware PUEL Intel-SDP dlj-1.1 skype-eula skype-4.0.0.7-copyright googleearth AdobeFlash-11.x cadsoft Oracle-BCLA-JavaSE MakeMKV-EULA NVIDIA-CUDA Nero-AAC-EULA GIMPS"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-march=amdfam10 -O2 -pipe"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc /etc/stunnel/stunnel.conf /usr/lib64/libreoffice/program/sofficerc /usr/share/config /usr/share/gnupg/qualified.txt"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/dconf /etc/env.d /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/php/apache2-php7.3/ext-active/ /etc/php/cgi-php7.3/ext-active/ /etc/php/cli-php7.3/ext-active/ /etc/revdep-rebuild /etc/sandbox.d /etc/terminfo /etc/texmf/language.dat.d /etc/texmf/language.def.d /etc/texmf/updmap.d /etc/texmf/web2c"
CXXFLAGS="-march=amdfam10 -O2 -pipe"
DISTDIR="/usr/portage/distfiles"
ENV_UNSET="DBUS_SESSION_BUS_ADDRESS DISPLAY GOBIN PERL5LIB PERL5OPT PERLPREFIX PERL_CORE PERL_MB_OPT PERL_MM_OPT XAUTHORITY XDG_CACHE_HOME XDG_CONFIG_HOME XDG_DATA_HOME XDG_RUNTIME_DIR"
FCFLAGS="-O2 -pipe"
FEATURES="assume-digests binpkg-docompress binpkg-dostrip binpkg-logs clean-logs config-protect-if-modified distlocks ebuild-locks fixlafiles ipc-sandbox merge-sync multilib-strict network-sandbox news parallel-fetch pid-sandbox preserve-libs protect-owned sandbox sfperms strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr"
FFLAGS="-O2 -pipe"
GENTOO_MIRRORS="http://distfiles.gentoo.org"
LANG="en_US.UTF-8"
LDFLAGS="-Wl,-O1 -Wl,--as-needed"
LINGUAS="de en fr ru"
MAKEOPTS="-j5"
PKGDIR="/usr/portage/packages"
PORTAGE_CONFIGROOT="/"
PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times --omit-dir-times --compress --force --whole-file --delete --stats --human-readable --timeout=180 --exclude=/distfiles --exclude=/local --exclude=/packages --exclude=/.git"
PORTAGE_TMPDIR="/var/tmp"
USE="3dnow 3dnowext 64bit R X Xaw3d a52 aac acl acpi admin afs alsa amd64 amr ao apache2 apng applet archive armadillo arpack asf aspell assistant atlas audacious audiofile aufs automap automount barcode bash-completion berkdb blas blast bluetooth bluray boost btrfs bzip2 cairo cdda cddb cdf cdio cdparanoia cdr cg cgi chm cilk clang cli cmake collada contrib crypt css cups curl cxx daap db dbi dbm dbus declarative designer devhelp device-mapper dga dia digitalradio djvu doc dot dri ds2490 ds9097 ds9097u dts dv dvb dvd dvdr dvi dynamicplugin eds egl elf emacs emboss emf encode epiphany evdev evo examples excel exif expat extensions extra extras faac faad fam ffmpeg fftw firefox fits flac fltk fontconfig foomaticdb fortran fortran95 fpm fpx ftp fuse gcj gd gdal gdbm gedit geoip geolocation geos gfortran gif gimp git glade glamor glib glpk gml gmp gnome gnome-keyring gnuplot gnutls gold gphoto2 gpm grammar graphics graphtft graphviz grass gsl gsm gstreamer gtk gtk3 gudev guile hddtemp hdf hdf5 hdri html http httpd hvm hwdb iconv icq icu id3tag ide imagemagick imap initramfs inotify introspection ipod ipv6 ithreads jadetex java jbig jit john jpeg jpeg2k json kate kde kdepim kdrive kerberos keymap kpathsea kvm ladspa lame lapack latex lcms ldap lensfun libffi libgda libkms libnotify libsamplerate libtirpc lm_sensors lua lzma lzo mad mail maildir mapnik math matroska media-library mercurial mikmod mng mod mono motif mozilla mp3 mp4 mpeg mpi mpi-threads mplayer mtp multilib multimedia musepack musicbrainz mysql mysqli nautilus ncurses netcdf netpbm network networking nfs nls nntp nptl nsplugin ntfs ntp numpy obex objc ocaml ocr octave odbc ofa ogdi ogg opencv openexr opengl openmp openvg pam pango pcre pda pdf pdl2 perl plasma plotutils plugins png podcast policykit portaudio posix postgres postscript ppds ppp preview-latex proj projectm pstricks pulseaudio python q16 q32 qemu qhull qml qt5 quicktime raw readline reiserfs reports rle romio rpc rrdcgi rrdtool rtlsdr sage samba sasl schroedinger science sdk sdl seccomp secure-delete server session shout sip slang slp smart smbclient smp sms sndfile snmp soap sockets sound soup sox speex spell sql sqlite ssl stlport subtitles subversion sudo suexec svg svm swig systemd szip t1lib tbb tcl tcpd tex tex4ht theora thesaurus threads thunderbird tidy tiff tk tools truetype udev udisks unicode usb utempter v4l v4l2 vaapi vala valgrind vdpau video vim-syntax virt-network virtualbox visio vorbis vpx vtk wav wayland webdav webdav-serf webkit wmf wxwidgets x264 x265 xa xattr xcb xen xetex xft xine xml xmlreader xmlrpc xpm xps xv xvid xvmc yaml youtube zlib zsh-completion zvbi" ABI_X86="64" ALSA_CARDS="ali5451 als4000 atiixp atiixp-modem bt87x ca0106 cmipci emu10k1x ens1370 ens1371 es1938 es1968 fm801 hda-intel intel8x0 intel8x0m maestro3 trident usb-audio via82xx via82xx-modem ymfpci" APACHE2_MODULES="actions alias auth_basic auth_digest authn_anon authn_dbd authn_core authn_dbm authn_default authn_file authz_core authz_dbm authz_default authz_groupfile authz_host authz_owner authz_user autoindex cache cgid dav dav_fs dav_lock dbd deflate dir disk_cache env expires ext_filter file_cache filter headers ident imagemap include info lbmethod_byrequests log_config logio mem_cache mime mime_magic negotiation proxy proxy_ajp proxy_balancer proxy_connect proxy_http rewrite setenvif slotmem_shm so socache_shmcb speling status unique_id unixd userdir usertrack vhost_alias" APACHE2_MPMS="worker" CALLIGRA_FEATURES="karbon sheets words" CAMERAS="canon fuji ptp2" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" CPU_FLAGS_X86="3dnow 3dnowext mmx mmxext popcnt sse sse2 sse3 sse4a" ELIBC="glibc" GPSD_PROTOCOLS="ashtech aivdm earthmate evermore fv18 garmin garmintxt gpsclock isync itrax mtk3301 nmea ntrip navcom oceanserver oldstyle oncore rtcm104v2 rtcm104v3 sirf skytraq superstar2 timing tsip tripmate tnt ublox ubx" GRUB_PLATFORMS="emu efi-64 pc xen" INPUT_DEVICES="keyboard mouse evdev void" KERNEL="linux" L10N="de en fr ru" LCD_DEVICES="cfontz hd44780 mtxorb ncurses X lcd2usb lcdlinux png usblcd SureElec" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" LIRC_DEVICES="devinput" LLVM_TARGETS="NVPTX X86" NETBEANS_MODULES="apisupport cnd dlight enterprise ergonomics groovy gsf harness ide identity j2ee java mobility nb php profiler websvccommon xml" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php7-2" POSTGRES_TARGETS="postgres10 postgres11" PYTHON_SINGLE_TARGET="python3_6" PYTHON_TARGETS="python2_7 python3_6" QEMU_SOFTMMU_TARGETS="arm i386 x86_64" QEMU_USER_TARGETS="arm i386 x86_64" RUBY_TARGETS="ruby24" USERLAND="GNU" VIDEO_CARDS="nouveau displaylink" XTABLES_ADDONS="quota2 psd pknock lscan length2 ipv4options ipset ipp2p iface geoip fuzzy condition tee tarpit sysrq steal rawnat logmark ipmark dhcpmac delude chaos account"
Unset:  CC, CPPFLAGS, CTARGET, CXX, EMERGE_DEFAULT_OPTS, INSTALL_MASK, LC_ALL, PORTAGE_BINHOST, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS

=================================================================
                        Package Settings
=================================================================

sci-mathematics/flint-2.5.2-r1::sage-on-gentoo was built with the following:
USE="doc ntl -gc -static-libs" ABI_X86="(64)"
FEATURES="assume-digests binpkg-docompress binpkg-dostrip binpkg-logs clean-logs config-protect-if-modified distlocks ebuild-locks fixlafiles merge-sync multilib-strict news parallel-fetch preserve-libs protect-owned sandbox sfperms strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr"



root@impala:/usr/local/portage/dev-util(80)# emerge -pqv '=sci-mathematics/flint-2.5.2-r1::sage-on-gentoo'
[ebuild   R   ] sci-mathematics/flint-2.5.2-r1  USE="doc ntl -gc -static-libs"
Comment 1 Juergen Rose 2019-06-25 13:57:06 UTC
'USE=-doc  emerge -v1 flint' works.
Comment 2 François Bissey 2019-06-25 20:53:18 UTC
OK, it's play find the missing texlive dependency! Note that the main tree version of flint is also be affected.

Do you have "texlive-luatex" installed? Or "texlive-xetex"? May be give me the output of 
eix -Ic texlive

so I can see what you have installed.
Comment 3 François Bissey 2019-06-25 23:20:36 UTC
It seems to be an issue with texlive 2019. I can reproduce the problem after upgrading from 2019. So it may be a change in latex rather than a missing dependency.
Comment 4 François Bissey 2019-06-26 00:18:42 UTC
Someone used a unicode character directly instead of a proper latex math symbols in one of the source files. It seems it was fine until in 2018 latex2e changed some of the default of how it handle utf8 characters. Upstream has completely changed how they generate the doc but they removed that particular character as far as I can tell.

I'll get a fix in the overlay shortly.
Comment 5 François Bissey 2019-06-26 00:31:45 UTC
Fixed in overlay

@Patrick the version of flint in the main tree has the same issue with texlive 2019. Patch is in the URL field.