Bug 590270 – sci-libs/votca-tools-1.3 : /.../ld: /.../libfftw3.a(apiplan.o): relocation R_X86_64_32S against `.rodata' can not be used when making a shared object; recompile with -fPIC

• Status: RESOLVED DUPLICATE of bug 590310
• Product: Gentoo Linux

[Description Toralf Förster 2016-08-02 06:46:57 UTC]

FAILED: src/libtools/libvotca_tools.so.3 
: && /usr/bin/x86_64-pc-linux-gnu-g++  -fPIC -march=native -O2 -pipe  -Wl,-O1 -Wl,--as-needed -shared -Wl,-soname,libvotca_tools.so.3 -o src/libtools/libvotca_tools.so.3 src/libtools/CMakeFiles/votca_tools.dir/akimaspline.cc.o src/libtools/CMakeFiles/votca_tools.dir/application.cc.o src/libtools/CMakeFiles/votca_tools.dir/colors.cc.o src/libtools/CMakeFiles/votca_tools.dir/correlate.cc.o src/libto
/usr/lib/gcc/x86_64-pc-linux-gnu/5.4.0/../../../../x86_64-pc-linux-gnu/bin/ld: /usr/lib/gcc/x86_64-pc-linux-gnu/5.4.0/../../../../lib64/libfftw3.a(apiplan.o): relocation R_X86_64_32S against `.rodata' can not be used when making a shared object; recompile with -fPIC
/usr/lib/gcc/x86_64-pc-linux-gnu/5.4.0/../../../../lib64/libfftw3.a: error adding symbols: Bad value
collect2: error: ld returned 1 exit status
ninja: build stopped: subcommand failed.


$ cat emerge-info.txt
  -----------------------------------------------------------------

  This is an unstable amd64 chroot image (named amd64-gnome-unstable_20160728-183305) at a hardened host acting as a tinderbox.

  -----------------------------------------------------------------

  make.conf:
USE="pax_kernel xtpax -cdinstall -oci8 -bindist alisp alsa avcodec bugzilla cdda -cgi consolekit csc custom-cflags -drmkms emacs exif -git gles gtk2 gui gzip -ibus imap -jadetex javascript kerberos -lapack logrotate mdnsresponder-compat mp4 multimedia mysqli networking -nscd offensive openmpi osc pkcs11 policykit pulseaudio python qemu semantic-desktop smpeg sockets sqlite3 ssh ssh-askpass sslv2 sslv3 svg system-libevent szip thinkpad tls truetype udisks vpx widgets -x265 xinerama xmlreader -ziffy"

  package.use flags:
mail-mta/ssmtp    ssl
net-misc/wget     ssl
app-editors/emacs -dbus -svg -ssl -gtk -gtk3
net-misc/iputils -caps -filecaps

  -----------------------------------------------------------------

gcc-config -l:
 [1] x86_64-pc-linux-gnu-4.9.3
 [2] x86_64-pc-linux-gnu-5.4.0 *
Available Java Virtual Machines:
  [1]   icedtea-bin-7  system-vm
  [2]   icedtea-bin-8 
Available Python interpreters, in order of preference:
  [1]   python3.4
  [2]   python3.5 (fallback)
  [3]   python2.7 (fallback)
  [4]   pypy3 (fallback)
  [5]   pypy (fallback)
Available Ruby profiles:
  [1]   ruby20 (with Rubygems) *
  [2]   ruby21 (with Rubygems)
  -----------------------------------------------------------------

Portage 2.3.0 (python 3.4.5-final-0, default/linux/amd64/13.0/desktop/gnome, gcc-5.4.0, glibc-2.23-r2, 4.6.5-hardened x86_64)
=================================================================
                         System Settings
=================================================================
System uname: Linux-4.6.5-hardened-x86_64-Intel-R-_Core-TM-_i7-3770_CPU_@_3.40GHz-with-gentoo-2.2
KiB Mem:    16156124 total,   1131712 free
KiB Swap:   16777212 total,  16711512 free
Timestamp of repository gentoo: Tue, 02 Aug 2016 00:23:32 +0000
sh bash 4.3_p46
ld GNU ld (Gentoo 2.26.1 p1.0) 2.26.1
app-shells/bash:          4.3_p46::gentoo
dev-java/java-config:     2.2.0-r3::gentoo
dev-lang/perl:            5.24.0-r1::gentoo
dev-lang/python:          2.7.12::gentoo, 3.4.5::gentoo, 3.5.2::gentoo
dev-util/cmake:           3.6.1::gentoo
dev-util/pkgconfig:       0.29.1::gentoo
sys-apps/baselayout:      2.2-r1::gentoo
sys-apps/openrc:          0.21.3::gentoo
sys-apps/sandbox:         2.10-r2::gentoo
sys-devel/autoconf:       2.13::gentoo, 2.69-r2::gentoo
sys-devel/automake:       1.11.6-r2::gentoo, 1.13.4-r1::gentoo, 1.14.1-r1::gentoo, 1.15-r2::gentoo
sys-devel/binutils:       2.26.1::gentoo
sys-devel/gcc:            4.9.3::gentoo, 5.4.0::gentoo
sys-devel/gcc-config:     1.8-r1::gentoo
sys-devel/libtool:        2.4.6-r2::gentoo
sys-devel/make:           4.2.1::gentoo
sys-kernel/linux-headers: 4.4::gentoo (virtual/os-headers)
sys-libs/glibc:           2.23-r2::gentoo
Repositories:

gentoo
    location: /usr/portage
    sync-type: rsync
    sync-uri: rsync://rsync.gentoo.org/gentoo-portage
    priority: 1

local
    location: /usr/local/portage
    masters: gentoo
    priority: 2

ACCEPT_KEYWORDS="amd64 ~amd64"
ACCEPT_LICENSE="*"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-march=native -O2 -pipe"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc /opt/openfire/resources/security/ /usr/share/gnupg/qualified.txt /usr/share/maven-bin-3.3/conf /var/lib/hsqldb"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/dconf /etc/env.d /etc/fonts/fonts.conf /etc/games/angband/gamedata/ /etc/gconf /etc/gentoo-release /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=native -O2 -pipe"
DISTDIR="/var/tmp/distfiles"
EMERGE_DEFAULT_OPTS="--verbose --verbose-conflicts --color=n --nospinner --tree --quiet-build"
FCFLAGS="-O2 -pipe"
FEATURES="assume-digests binpkg-logs config-protect-if-modified distlocks ebuild-locks fixlafiles ipc-sandbox merge-sync network-sandbox parallel-fetch preserve-libs protect-owned sandbox sfperms strict test-fail-continue unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr"
FFLAGS="-O2 -pipe"
GENTOO_MIRRORS="http://ftp.uni-erlangen.de/pub/mirrors/gentoo rsync://mirror.netcologne.de/gentoo/ ftp://sunsite.informatik.rwth-aachen.de/pub/Linux/gor.bytemark.co.uk/gentoo/ rsync://ftp.snt.utwente.nl/gentoo"
LANG="en_US.utf8"
LDFLAGS="-Wl,-O1 -Wl,--as-needed"
MAKEOPTS="-j1"
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="X a52 aac acl acpi alisp alsa amd64 avcodec berkdb bluetooth branding bugzilla bzip2 cairo cdda cdr cli colord consolekit cracklib crypt csc cups custom-cflags cxx dbus dri dts dvd dvdr eds emacs emboss encode evo exif fam firefox flac fortran gdbm gif glamor gles gnome gnome-keyring gnome-online-accounts gpm gstreamer gtk gtk2 gui gzip iconv imap introspection ipv6 javascript jpeg kerberos lcms ldap libnotify libsecret logrotate mad mdnsresponder-compat mmx mmxext mng modules mp3 mp4 mpeg multilib multimedia mysqli nautilus ncurses networking nls nptl offensive ogg opengl openmp openmpi osc pam pango pax_kernel pcre pdf pkcs11 png policykit ppds pulseaudio python qemu qt3support qt4 readline sdl seccomp semantic-desktop session smpeg sockets spell sqlite3 sse sse2 ssh ssh-askpass ssl sslv2 sslv3 startup-notification svg system-libevent szip tcpd thinkpad tiff tls tracker truetype udev udisks unicode upower usb vorbis vpx widgets wxwidgets x264 xattr xcb xinerama xml xmlreader xtpax xv xvid zlib" 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="authn_core authz_core socache_shmcb unixd actions alias auth_basic authn_alias authn_anon authn_dbm authn_default authn_file authz_dbm authz_default authz_groupfile authz_host authz_owner authz_user autoindex cache cgi cgid dav dav_fs dav_lock deflate dir disk_cache env expires ext_filter file_cache filter headers include info log_config logio mem_cache mime mime_magic negotiation rewrite setenvif speling status unique_id userdir usertrack vhost_alias" CALLIGRA_FEATURES="kexi words flow plan sheets stage tables krita karbon braindump author" CAMERAS="ptp2" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" CPU_FLAGS_X86="aes avx mmx mmxext popcnt sse sse2 sse3 sse4_1 sse4_2 ssse3" ELIBC="glibc" GPSD_PROTOCOLS="ashtech aivdm earthmate evermore fv18 garmin garmintxt gpsclock itrax mtk3301 nmea ntrip navcom oceanserver oldstyle oncore rtcm104v2 rtcm104v3 sirf superstar2 timing tsip tripmate tnt ublox ubx" INPUT_DEVICES="keyboard mouse evdev" KERNEL="linux" L10N="el ks mk sr ug" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php5-5" PYTHON_SINGLE_TARGET="python2_7" PYTHON_TARGETS="python2_7 python3_4" RUBY_TARGETS="ruby20 ruby21" USERLAND="GNU" VIDEO_CARDS="amdgpu fbdev intel nouveau radeon radeonsi vesa dummy v4l" 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, INSTALL_MASK, LC_ALL, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, USE_PYTHON

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

sci-libs/votca-tools-1.3::gentoo was built with the following:
USE="fftw gsl -doc -sqlite" ABI_X86="64"

[Comment 1 Toralf Förster 2016-08-02 06:46:59 UTC]

Created attachment 442260 [details]
emerge-history.txt

[Comment 2 Toralf Förster 2016-08-02 06:47:02 UTC]

Created attachment 442262 [details]
environment

[Comment 3 Toralf Förster 2016-08-02 06:47:05 UTC]

Created attachment 442264 [details]
sci-libs:votca-tools-1.3:20160802-020627.log

[Comment 4 Christoph Junghans (RETIRED) 2016-08-02 15:58:08 UTC]

*** This bug has been marked as a duplicate of bug 590310 ***