Bug 567460 – dev-lang/elixir-1.1.1 : file collision with sci-biology/phylip-3.696:0::gentoo

• Product: Gentoo Linux
• Status: RESOLVED DUPLICATE

[Description Toralf Förster 2015-12-03 14:44:58 UTC]

 * Detected file collision(s):
 * 
 * 	/usr/bin/mix
 * 
 * Searching all installed packages for file collisions...
 * 
 * Press Ctrl-C to Stop
 * 
 * sci-biology/phylip-3.696:0::gentoo
 * 	/usr/bin/mix
 * 
 * Package 'dev-lang/elixir-1.1.1' NOT merged due to file collisions. If


$ cat ./info.txt
  -----------------------------------------------------------------

  This is an unstable amd64 chroot image (named amd64-desktop-unstable_20151106-165316) at a hardened host acting as a tinderbox.

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

  Portage 2.2.26 (python 2.7.10-final-0, default/linux/amd64/13.0/desktop, gcc-4.9.3, glibc-2.22-r1, 4.1.7-hardened-r1 x86_64)
=================================================================
System uname: Linux-4.1.7-hardened-r1-x86_64-Intel-R-_Core-TM-_i7-3770_CPU_@_3.40GHz-with-gentoo-2.2
KiB Mem:    16164644 total,    876168 free
KiB Swap:          0 total,         0 free
Timestamp of repository gentoo: Thu, 03 Dec 2015 04:21:50 +0000
sh bash 4.3_p42
ld GNU ld (Gentoo 2.25.1 p1.1) 2.25.1
distcc 3.2rc1 x86_64-pc-linux-gnu [disabled]
ccache version 3.2.4 [disabled]
app-shells/bash:          4.3_p42::gentoo
dev-java/java-config:     2.2.0::gentoo
dev-lang/perl:            5.22.0::gentoo
dev-lang/python:          2.7.10-r3::gentoo, 3.3.5-r2::gentoo, 3.4.3-r2::gentoo, 3.5.0-r1::gentoo
dev-util/ccache:          3.2.4::gentoo
dev-util/cmake:           3.4.0-r1::gentoo
dev-util/pkgconfig:       0.29::gentoo
sys-apps/baselayout:      2.2::gentoo
sys-apps/openrc:          0.18.4::gentoo
sys-apps/sandbox:         2.9::gentoo
sys-devel/autoconf:       2.13::gentoo, 2.69-r1::gentoo
sys-devel/automake:       1.9.6-r4::gentoo, 1.10.3-r1::gentoo, 1.11.6-r1::gentoo, 1.12.6::gentoo, 1.13.4::gentoo, 1.14.1::gentoo, 1.15::gentoo
sys-devel/binutils:       2.25.1-r1::gentoo
sys-devel/gcc:            4.2.4-r1::gentoo, 4.9.3::gentoo
sys-devel/gcc-config:     1.8::gentoo
sys-devel/libtool:        2.4.6-r1::gentoo
sys-devel/make:           4.1-r1::gentoo
sys-kernel/linux-headers: 4.3::gentoo (virtual/os-headers)
sys-libs/glibc:           2.22-r1::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 /etc/grs/systems.conf /etc/stunnel/stunnel.conf /usr/lib64/tomoyo/conf /usr/share/config /usr/share/easy-rsa /usr/share/gnupg/qualified.txt /usr/share/maven-bin-3.3/conf /usr/share/themes/oxygen-gtk/gtk-2.0 /var/lib/hsqldb /var/yp/Makefile"
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="--deep --color=n --nospinner --tree --quiet-build --accept-properties=-interactive --accept-restrict=-fetch"
FCFLAGS="-O2 -pipe"
FEATURES="assume-digests binpkg-logs config-protect-if-modified distlocks ebuild-locks fixlafiles ipc-sandbox merge-sync network-sandbox news parallel-fetch 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://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"
PORTAGE_TMPDIR="/var/tmp"
USE="X a52 aac acl acpi alsa amd64 avx2 berkdb bindist bluetooth branding bzip2 cdb cdda cdr cgi clang cli consolekit corefonts cracklib crypt cups custom-cflags cxx dbus dri dts dvb dvd dvdr egl emboss encode exif fam firefox flac fontconfig fortran freetds ftp gdbm gif git glamor gles2 gpm gtk gui hpn iconv inifile ipv6 jadetex jpeg lcms ldap libkms libnotify logrotate mad mbox mmx mmxext mng modules mp3 mp4 mpeg multilib ncurses nls nptl ogg opengl openmp openmpi openssl pam pango pax_kernel pcre pcre16 pdf png policykit postscript ppds pulseaudio qt3support qt5 readline sdl seccomp session sockets spell sse sse2 ssl startup-notification svg tcpd tiff tk tls truetype udev udisks unicode upower usb vorbis webkit widgets wxwidgets x264 xa xattr xcb xinetd xml xmlreader xv xvfb xvid xz 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" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" LINGUAS="en en_GB" 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="fbdev glint intel mach64 mga nouveau nv r128 radeon savage sis tdfx trident vesa via vmware 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

[Comment 1 Toralf Förster 2015-12-03 14:45:01 UTC]

Created attachment 418470 [details]
dev-lang:elixir-1.1.1:20151203-065521.log

[Comment 2 Toralf Förster 2015-12-03 14:45:04 UTC]

Created attachment 418472 [details]
emerge-history.txt

[Comment 3 Toralf Förster 2016-02-01 13:00:15 UTC]

*** This bug has been marked as a duplicate of bug 537514 ***