Bug 281527 – sci-libs/hdf5-1.8.3 fails to compile

• Product: Gentoo Linux
• Status: RESOLVED UPSTREAM

[Description Andrew Savchenko 2009-08-14 23:34:23 UTC]

gfortran -I../../fortran/src -I../../fortran/src -I.  -march=athlon-xp -m32 --param l1-cache-line-size=64 --param l1-cache-size=64 --param l2-cache-size=512 -O2 -funswitch-loops -fpredictive-commoning -fgcse-after-reload -ftree-vectorize -fomit-frame-pointer -mfpmath=sse -pipe   -c -o fortranlib_test-tH5P.o `test -f 'tH5P.f90' || echo './'`tH5P.f90
tH5VL.f90: In function ‘vl_test_real’:
tH5VL.f90:225: error: ‘’ needs isa option
make[2]: *** [fortranlib_test-tH5VL.o] Error 1
make[2]: *** Waiting for unfinished jobs....
make[2]: Leaving directory `/var/tmp/portage/sci-libs/hdf5-1.8.3/work/hdf5-1.8.3/fortran/test'
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory `/var/tmp/portage/sci-libs/hdf5-1.8.3/work/hdf5-1.8.3/fortran'
make: *** [all-recursive] Error 1

$ emerge --info
Portage 2.2_rc38 (default/linux/x86/2008.0, gcc-4.4.1, glibc-2.10.1-r0, 2.6.29.2-yoruichi i686)
=================================================================
System uname: Linux-2.6.29.2-yoruichi-i686-AMD_Athlon-tm-_XP_3200+-with-gentoo-2.0.1
Timestamp of tree: Fri, 14 Aug 2009 12:15:02 +0000
distcc 3.1 i686-pc-linux-gnu [disabled]
ccache version 2.4 [enabled]
app-shells/bash:     4.0_p28
dev-java/java-config: 2.1.8-r1
dev-lang/python:     2.6.2-r1, 3.1
dev-python/pycrypto: 2.0.1-r8
dev-util/ccache:     2.4-r8
dev-util/cmake:      2.6.4-r2
sys-apps/baselayout: 2.0.1
sys-apps/openrc:     0.4.3-r3
sys-apps/sandbox:    2.0
sys-devel/autoconf:  2.13, 2.63-r1
sys-devel/automake:  1.4_p6, 1.6.3, 1.7.9-r1, 1.8.5-r3, 1.9.6-r2, 1.10.2, 1.11
sys-devel/binutils:  2.19.1-r1
sys-devel/gcc-config: 1.4.1
sys-devel/libtool:   2.2.6a
virtual/os-headers:  2.6.29
ACCEPT_KEYWORDS="x86 ~x86"
CBUILD="i686-pc-linux-gnu"
CFLAGS="-march=athlon-xp -m32 --param l1-cache-line-size=64 --param l1-cache-size=64 --param l2-cache-size=512 -O2 -funswitch-loops -fpredictive-commoning -fgcse-after-reload -ftree-vectorize -fomit-frame-pointer -mfpmath=sse -pipe"
CHOST="i686-pc-linux-gnu"
CONFIG_PROTECT="/etc /usr/kde/3.5/env /usr/kde/3.5/share/config /usr/kde/3.5/shutdown /usr/share/config /var/bind /var/lib/hsqldb"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/env.d/java/ /etc/fonts/fonts.conf /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 /etc/udev/rules.d"
CXXFLAGS="-march=athlon-xp -m32 --param l1-cache-line-size=64 --param l1-cache-size=64 --param l2-cache-size=512 -O2 -funswitch-loops -fpredictive-commoning -fgcse-after-reload -ftree-vectorize -fomit-frame-pointer -mfpmath=sse -pipe"
DISTDIR="/usr/portage/distfiles"
EMERGE_DEFAULT_OPTS="--with-bdeps y"
FEATURES="assume-digests ccache collision-protect distlocks fixpackages parallel-fetch preserve-libs protect-owned sandbox sfperms strict unmerge-logs unmerge-orphans userfetch userpriv usersandbox"
FFLAGS="-march=athlon-xp -m32 --param l1-cache-line-size=64 --param l1-cache-size=64 --param l2-cache-size=512 -O2 -funswitch-loops -fpredictive-commoning -fgcse-after-reload -ftree-vectorize -fomit-frame-pointer -mfpmath=sse -pipe"
GENTOO_MIRRORS=" ftp://orionis/distributions/1Linux/gentoo/portage ftp://ftp.chg.ru/pub/Linux/gentoo http://mirror.yandex.ru/gentoo-distfiles  ftp://ftp.corbina.net/pub/Linux/gentoo http://distfiles.gentoo.org http://www.ibiblio.org/pub/Linux/distributions/gentoo http://mirror.netcologne.de/gentoo"
LANG="en_US.UTF-8"
LC_ALL=""
LDFLAGS="-Wl,-O1"
LINGUAS="ru en ja"
MAKEOPTS="-j4"
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="/usr/local/portage/layman/science /usr/local/portage/layman/java-overlay /usr/local/portage/layman/sunrise /usr/local/portage"
SYNC="rsync://rsync.europe.gentoo.org/gentoo-portage"
USE="3dnow X a52 aac aalib acl acpi adns afs aften aim alsa amr amrnb amrwb ao audiofile bash-completion bcmath bidi binfilter blas bluetooth branding bzip2 cairo calendar canna caps ccache cddb cdinstall cdparanoia cdr chasen cjk cli clisp colordiff cracklib crypt cscope css ctype cups curl curlwrappers cvs cxx cyrillic dbus device-mapper dga dia dirac directfb djvu dmx doc dri dts dv dvd dvdr dvdread dvi editor elf encode enscript ermt examples exif expat faac faad fbcon festival ffmpeg fftw firefox flac fontconfig foomaticdb fortran fpx freetds freetype ftp gcj gcrypt gd gdbm geoip ggi gif gimp ginac git glut gmp gnuplot gnutls gpgme gphoto2 gpm gps graphviz gs gsl gsm gtk gucharmap h224 h281 h323 hdf5 hdri iconv icq icu id3tag idn imagemagick imap imlib immqt-bc inkjar ipod iproute2 ipv6 isdnlog jabber jack jadetex java6 javascript jbig jingle jpeg jpeg2k kdehiddenvisibility kerberos keyscrub kpathsea kqemu ladspa lame lapack lash latex lcms libcaca libnotify libsamplerate libwww lm_sensors logrotate lzo mad maildir mailwrapper matroska mbox md5sum mhash mikmod mime mjpeg mmap mmx mng modplug mp3 mpeg mplayer mppe-mppc msn mudflap musepack musicbrainz mysql mysqli nas ncurses netcdf network network-cron nls nntp nocd nodrm nptlonly nsplugin nuv objc objc++ offensive ogg openal openexr opengl oscar otr pam pango pch pcntl pcre pda pdf perl pgf plotutils png pop portaudio posix postproc postscript ppds pppd pronounce pstricks qt3 qt3support qt4 quicktime raw rdesktop readline recode reflection restrict-javascript rle rrdtool samba scanner schroedinger sdl session sharedmem shorten sip sipim slang slp smi smime sms smtp sndfile sockets socks5 soundtouch sox sparse speex spell spl sqlite sqlite3 srtp sse ssl startup-notification subversion supernodal svg svga sysfs syslog szip t1lib taglib tcpd theora tiff timezone timidity tordns truetype twolame type3 unicode usb v4l v4l2 vamp vcd videos vim vim-syntax vnc vorbis wav wavpack wifi win32codecs wireshark wmf x264 x86 xattr xcb xface xft xinerama xorg xosd xpm xprint xrandr xscreensaver xulrunner xv xvid yahoo yaz ziffy zlib" ALSA_CARDS="intel8x0" 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="authz_host dir mime" ELIBC="glibc" INPUT_DEVICES="keyboard mouse evdev" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LINGUAS="ru en ja" USERLAND="GNU" VIDEO_CARDS="nvidia nv vesa"
Unset:  CPPFLAGS, CTARGET, INSTALL_MASK, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS

[Comment 1 Andrew Savchenko 2009-08-14 23:36:18 UTC]

Created attachment 201284 [details]
build.log

Compressed because it's too large to be uploaded in plain text.

[Comment 2 Andrew Savchenko 2009-08-14 23:36:42 UTC]

Created attachment 201286 [details]
environment

[Comment 3 Andrew Savchenko 2009-08-14 23:43:51 UTC]

I suspect it is gcc-4.4.1 issue, it compiles ok with gcc-4.3.3.

[Comment 4 Andrew Savchenko 2009-08-15 00:05:28 UTC]

With gcc-4.4.1 it compiles OK without -ftree-vectorize option.
Suspect a gcc bug.

Suggest to filter out this flag and -O3, because it includes -ftree-vectorize.

[Comment 5 Sébastien Fabbro (RETIRED) 2009-08-18 21:10:08 UTC]

Unable to reproduce, even with your list of *FLAGS (but on a amd64).
Please try to compile with lowering your flags to -O2 and report.
Thanks.

[Comment 6 Andrew Savchenko 2009-08-18 22:29:25 UTC]

It compiles with -O2, it fails to compile with -O2 -ftree-vectorize.
Have you checked with gcc-4.4.1?

[Comment 7 Sébastien Fabbro (RETIRED) 2009-08-26 06:40:22 UTC]

(In reply to comment #6)
> It compiles with -O2, it fails to compile with -O2 -ftree-vectorize.
> Have you checked with gcc-4.4.1?

Yes I did check and with all your flags. Your list of cflags is quite long so I won't check all combinations. -ftree-vectorize worked fine on amd64, sorry I can't check on a x86 box for a while.

[Comment 8 Andrew Savchenko 2009-08-27 05:48:36 UTC]

(In reply to comment #7)
> (In reply to comment #6)
> > It compiles with -O2, it fails to compile with -O2 -ftree-vectorize.
> > Have you checked with gcc-4.4.1?
> 
> Yes I did check and with all your flags. Your list of cflags is quite long so I
> won't check all combinations. -ftree-vectorize worked fine on amd64, sorry I
> can't check on a x86 box for a while.

Hm, it seems to be a gcc bug even more. It fails on my Athlon-XP (-march=athlon-xp) and it compiles ok on Atom (-march=core2 -m32).

[Comment 9 Andrew Savchenko 2009-08-27 18:16:03 UTC]

(In reply to comment #8)
> Hm, it seems to be a gcc bug even more. It fails on my Athlon-XP
> (-march=athlon-xp) and it compiles ok on Atom (-march=core2 -m32).
 
And it compiles ok on amd64 (-march=nocona). So the problem is present only on Athlon-XP among all gentoo boxes under mine control.

[Comment 10 Sébastien Fabbro (RETIRED) 2009-09-21 02:10:57 UTC]

(In reply to comment #9)
> 
> And it compiles ok on amd64 (-march=nocona). So the problem is present only on
> Athlon-XP among all gentoo boxes under mine control.
> 
Could you report upstream your problem then? Thanks.

[Comment 11 Andrew Savchenko 2009-09-21 07:32:49 UTC]

(In reply to comment #10)
> Could you report upstream your problem then? Thanks.

It occurs to be well known gcc bug 8-(
https://bugs.gentoo.org/show_bug.cgi?id=270120
http://gcc.gnu.org/PR40838