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Bug 594924

Summary: sci-biology/vcftools-0.1.12b : entry.cpp:592:43: error: narrowing conversion of ‘128’ from ‘int’ to ‘char’ inside { } [-Wnarrowing]
Product: Gentoo Linux Reporter: Toralf Förster <toralf>
Component: Current packagesAssignee: Gentoo Science Biology related packages <sci-biology>
Status: RESOLVED FIXED    
Severity: normal    
Priority: Normal    
Version: unspecified   
Hardware: All   
OS: Linux   
Whiteboard:
Package list:
Runtime testing required: ---
Bug Depends on:    
Bug Blocks: 582084    
Attachments: emerge-history.txt
environment
sci-biology:vcftools-0.1.12b:20160923-114649.log

Description Toralf Förster gentoo-dev 2016-09-23 18:15:05 UTC
x86_64-pc-linux-gnu-g++ -c -march=native -O2 -pipe -O2 -D_FILE_OFFSET_BITS=64  -DVCFTOOLS_PCA entry.cpp -o entry.o
entry.cpp: In member function ‘void entry::make_typed_float_vector(std::vector<char>&, const string&, int)’:
entry.cpp:592:43: error: narrowing conversion of ‘128’ from ‘int’ to ‘char’ inside { } [-Wnarrowing]
  char missing[4] = {0x01, 0x00, 0x80, 0x7F};
                                           ^


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

  This is an unstable amd64 chroot image (named amd64-gnome-unstable_20160920-152505) at a hardened host acting as a tinderbox.

  -----------------------------------------------------------------
  USE flags ...

  ... in make.conf:
USE="  pax_kernel xtpax -cdinstall -oci8 -bindist alisp apache bugzilla -cairo cddb -consolekit contrib designer dnssec eglfs -fpm gstreamer gudev gzip ipv6 javaxml lapack libinput logrotate midi mikmod mysql networking nls nscd ois opencv pdo -plasma postproc rdoc sddm server -smime smpeg -snmp sql -sqlite3 ssl -sslv3 system-cairo system-jpeg system-libs theora -threads tk tools usb vala vim webstart x264 xa xetex xkb"

  ... in /etc/portage/package.use/*:
  mail-mta/ssmtp      ssl mta
  net-misc/wget       ssl
  app-crypt/pinentry  -qt4
  app-editors/emacs   -dbus -svg -ssl -gtk -gtk3
  app-text/xmlto      -latex
  dev-libs/boehm-gc   threads
  dev-libs/libpcre    pcre16
  dev-lang/python     threads
  dev-qt/qtgui        egl eglfs
  net-nds/openldap    -sasl
  dev-util/cmake      -qt4 -qt5
  dev-vcs/git         -perl
  gnome-base/librsvg  -tools
  media-libs/mesa     -vaapi
  sys-apps/kmod       tools
  <=net-misc/openssh-7.3_p1-r2    -hpn
  net-misc/iputils -caps -filecaps
  net-print/cups threads
  dev-lang/python threads

  entries in /etc/portage/package.unmask/*:
  media-video/ffmpeg
  sys-devel/gcc:6.2.0
  -----------------------------------------------------------------

gcc-config -l:
 [1] x86_64-pc-linux-gnu-4.9.3
 [2] x86_64-pc-linux-gnu-6.2.0 *
llvm-config --version:
3.8.1

Available Python interpreters, in order of preference:
  [1]   python2.7
  [2]   python3.4

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

Portage 2.3.1 (python 2.7.12-final-0, default/linux/amd64/13.0/desktop/gnome, gcc-6.2.0, glibc-2.23-r2, 4.7.4-hardened-r1 x86_64)
=================================================================
                         System Settings
=================================================================
System uname: Linux-4.7.4-hardened-r1-x86_64-Intel-R-_Core-TM-_i7-3930K_CPU_@_3.20GHz-with-gentoo-2.3
KiB Mem:    65285480 total,   3939564 free
KiB Swap:   67108860 total,  67108860 free
Timestamp of repository gentoo: Fri, 23 Sep 2016 09:48:30 +0000
sh bash 4.3_p46-r1
ld GNU ld (Gentoo 2.25.1 p1.1) 2.25.1
app-shells/bash:          4.3_p46-r1::gentoo
dev-lang/perl:            5.24.0-r1::gentoo
dev-lang/python:          2.7.12::gentoo, 3.4.5::gentoo
dev-util/cmake:           3.6.2::gentoo
dev-util/pkgconfig:       0.29.1::gentoo
sys-apps/baselayout:      2.3::gentoo
sys-apps/openrc:          0.21.7::gentoo
sys-apps/sandbox:         2.10-r2::gentoo
sys-devel/autoconf:       2.13::gentoo, 2.69-r2::gentoo
sys-devel/automake:       1.10.3-r2::gentoo, 1.11.6-r2::gentoo, 1.13.4-r1::gentoo, 1.14.1-r1::gentoo, 1.15-r2::gentoo
sys-devel/binutils:       2.25.1-r1::gentoo, 2.26.1::gentoo
sys-devel/gcc:            4.9.3::gentoo, 6.2.0-r1::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: 4.7::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 /usr/share/config"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/dconf /etc/env.d /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/revdep-rebuild /etc/sandbox.d /etc/terminfo"
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 apache berkdb bluetooth branding bugzilla bzip2 cdda cddb cdr cli colord contrib cracklib crypt cups cxx dbus designer dnssec dri dts dvd dvdr eds eglfs emboss encode evo exif fam firefox flac fortran gdbm gif glamor gnome gnome-keyring gnome-online-accounts gpm gstreamer gtk gudev gzip iconv introspection ipv6 javaxml jpeg lapack lcms ldap libinput libnotify libsecret logrotate mad midi mikmod mmx mmxext mng modules mp3 mp4 mpeg multilib mysql nautilus ncurses networking nls nptl nscd ogg ois opencv opengl openmp pam pango pax_kernel pcre pdf pdo png policykit postproc ppds pulseaudio qt3support qt4 rdoc readline sddm sdl seccomp server session smpeg spell sql sse sse2 ssl startup-notification svg system-cairo system-jpeg system-libs tcpd theora tiff tk tools tracker truetype udev udisks unicode upower usb vala vim vorbis webstart wxwidgets x264 xa xattr xcb xetex xkb xml 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="az dgo fi fr-CA hr ko my pl sat" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php5-6" 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
Comment 1 Toralf Förster gentoo-dev 2016-09-23 18:15:11 UTC
Created attachment 447590 [details]
emerge-history.txt
Comment 2 Toralf Förster gentoo-dev 2016-09-23 18:15:14 UTC
Created attachment 447592 [details]
environment
Comment 3 Toralf Förster gentoo-dev 2016-09-23 18:15:16 UTC
Created attachment 447594 [details]
sci-biology:vcftools-0.1.12b:20160923-114649.log
Comment 4 David Seifert gentoo-dev 2016-09-25 09:44:16 UTC
commit bdf7251db30941f3912dd646d37fb125fbabf018
Author: David Seifert <soap@gentoo.org>
Date:   Sun Sep 25 11:24:17 2016 +0200

    sci-biology/vcftools: Version bump to 0.1.14
    
    Gentoo-bug: 594924
    * EAPI=6
    * Properly RDEPEND on dev-lang/perl