Bug 360517 – sci-biology/amap fails to build with GCC-4.6

• Status: RESOLVED FIXED
• Product: Gentoo Linux

[Description Kacper Kowalik (Xarthisius) (RETIRED) 2011-03-26 08:47:49 UTC]

Created attachment 267231 [details]
build log

Portage 2.2.0_alpha27 (default/linux/amd64/10.0, gcc-4.6.0-alpha20110226-asneeded, glibc-2.13-r1, 2.6.37-gentoo x86_64)
=================================================================
System uname: Linux-2.6.37-gentoo-x86_64-AMD_Athlon-tm-_64_X2_Dual_Core_Processor_6000+-with-gentoo-2.0.1
Timestamp of tree: Tue, 15 Mar 2011 18:00:01 +0000
distcc 3.1 x86_64-pc-linux-gnu [disabled]
app-shells/bash:     4.1_p9
dev-java/java-config: 2.1.11-r3
dev-lang/python:     2.4.6, 2.6.6-r1, 2.7.1, 3.1.3
dev-util/cmake:      2.8.3-r1
sys-apps/baselayout: 2.0.1-r1
sys-apps/openrc:     0.7.0
sys-apps/sandbox:    2.5
sys-devel/autoconf:  2.13, 2.68
sys-devel/automake:  1.9.6-r3, 1.10.3, 1.11.1
sys-devel/binutils:  2.21
sys-devel/gcc:       3.4.6-r2, 4.1.2, 4.4.5, 4.5.2, 4.6.0_alpha20110226::toolchain
sys-devel/gcc-config: 1.4.1
sys-devel/libtool:   2.4-r1::Hydra overlay
sys-devel/make:      3.82
virtual/os-headers:  2.6.36.1 (sys-kernel/linux-headers)
Repositories: gentoo scarabeus_local_overlay eyolfson ultrabug toolchain
Installed sets: @system
ACCEPT_KEYWORDS="amd64 ~amd64"
ACCEPT_LICENSE="* -@EULA PUEL skype-eula AdobeFlash-10.1"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-O2 -march=native -pipe -Wimplicit-function-declaration -Wall -Wformat-security"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc /usr/share/gnupg/qualified.txt /usr/share/openvpn/easy-rsa /var/spool/torque"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/env.d/java/ /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/php/apache2-php5.3/ext-active/ /etc/php/cgi-php5.3/ext-active/ /etc/php/cli-php5.3/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="-O2 -march=native -pipe"
DISTDIR="/usr/portage/distfiles"
FEATURES="assume-digests binpkg-logs buildpkg distlocks fixlafiles fixpackages multilib-strict news nostrip parallel-fetch preserve-libs protect-owned sandbox sfperms sign split-elog split-log strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox"
FFLAGS=""
GENTOO_MIRRORS="http://distfiles.gentoo.org"
LANG="pl_PL.utf8"
LC_ALL="pl_PL.utf8"
LDFLAGS="-Wl,--hash-style=gnu,-O1 -Wl,--as-needed"
LINGUAS="en pl"
MAKEOPTS="-j3"
PKGDIR="/usr/portage/packages"
PORTAGE_CONFIGROOT="/"
PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times --compress --force --whole-file --delete --stats --timeout=180 --exclude=/distfiles --exclude=/local --exclude=/packages"
PORTAGE_TMPDIR="/var/tmp"
PORTDIR="/usr/portage"
PORTDIR_OVERLAY="/var/lib/layman/scarabeus /var/lib/layman/eyolfson /var/lib/layman/ultrabug /var/lib/layman/toolchain"
SYNC="rsync://rsync.gentoo.org/gentoo-portage"
USE="3dnow 3dnowext X acl alsa amd64 bash-completion berkdb bzip2 cairo cdr cli consolekit cracklib crypt cups cxx dbus dri dvd dvdr encode ffmpeg fortran gif gnome gnome-keyring gpm gtk hdf5 iconv imagemagick ipv6 jpeg latex libnotify mmx modules mp3 mpi mudflap multilib mysql ncurses nls nptl nptlonly ogg opengl openmp pam pcre perl php5 png policykit pppd python readline sbcl session slang spell sse sse2 ssl startup-notification sysfs tcpd theora threads tiff truetype udev unicode usb vhosts vim-syntax vorbis wma xml xorg zip zlib" 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" ALSA_PCM_PLUGINS="adpcm alaw asym copy dmix dshare dsnoop empty extplug file hooks iec958 ioplug ladspa lfloat linear meter mmap_emul mulaw multi null plug rate route share shm softvol" APACHE2_MODULES="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" CAMERAS="ptp2" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" 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 ubx" INPUT_DEVICES="evdev" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LINGUAS="en pl" PHP_TARGETS="php5-3" RUBY_TARGETS="ruby18" USERLAND="GNU" VIDEO_CARDS="nvidia" 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:  CPPFLAGS, CTARGET, EMERGE_DEFAULT_OPTS, INSTALL_MASK, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS

[Comment 1 Ryan Hill (RETIRED) 2011-03-26 10:15:58 UTC]

#include <cstddef>

[Comment 2 Kacper Kowalik (Xarthisius) (RETIRED) 2011-03-26 10:56:31 UTC]

+  26 Mar 2011; Kacper Kowalik <[e-mail]> -amap-2.2-r1.ebuild,
+  +amap-2.2-r2.ebuild, -files/amap-2.2-cxxflags.patch,
+  -files/amap-2.2-gcc4.3.patch, +files/amap-2.2-includes.patch,
+  +files/amap-2.2-makefile.patch:
+  Clean java bits thanks to sera. General cleanup, fix linking order, fix
+  building with gcc 4.6 wrt #360517. Drop old.