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Bug 586582 - sci-libs/spqr-1.2.3-r1 : * Failed Running automake !
Summary: sci-libs/spqr-1.2.3-r1 : * Failed Running automake !
Status: RESOLVED FIXED
Alias: None
Product: Gentoo Linux
Classification: Unclassified
Component: Current packages (show other bugs)
Hardware: All Linux
: Normal normal with 6 votes (vote)
Assignee: Gentoo Science Related Packages
URL:
Whiteboard:
Keywords:
Depends on: 627094
Blocks: 613576
  Show dependency tree
 
Reported: 2016-06-21 16:17 UTC by Toralf Förster
Modified: 2020-07-21 17:50 UTC (History)
8 users (show)

See Also:
Package list:
Runtime testing required: ---


Attachments
automake.out (automake.out,884 bytes, text/plain)
2016-06-21 16:17 UTC, Toralf Förster
Details
emerge-history.txt (emerge-history.txt,333.98 KB, text/plain)
2016-06-21 16:17 UTC, Toralf Förster
Details
environment (environment,105.37 KB, text/plain)
2016-06-21 16:17 UTC, Toralf Förster
Details
sci-libs:spqr-1.2.3-r1:20160620-215840.log (sci-libs:spqr-1.2.3-r1:20160620-215840.log,2.13 KB, text/plain)
2016-06-21 16:17 UTC, Toralf Förster
Details

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Description Toralf Förster gentoo-dev 2016-06-21 16:17:04 UTC
 [ !! ]

 * Failed Running automake !
 * 
 * Include in your bugreport the contents of:
 * 


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

  This is an stable amd64 chroot image (named amd64-plasma-stable_20160615-222937) at a hardened host acting as a tinderbox.

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

  make.conf: USE="pax_kernel xtpax -cdinstall -oci8 -bindist alsa apache cgi -cups designer eglfs evdev ffmpeg gnuplot graphtft gudev gui gzip hdf5 -icu introspection jpeg -libkms logrotate minizip -modplug mpeg mpi mssql multimedia mysqli openmpi postproc rendering scripts sddm semantic-desktop ssl sslv2 swscale system-harfbuzz system-sqlite thinkpad -ufed -uml usbredir v4l2 wav x264 xinerama xvmc zenmap egl"

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

Portage 2.2.28 (python 3.4.3-final-0, default/linux/amd64/13.0/desktop/plasma, gcc-4.9.3, glibc-2.22-r4, 4.5.7-hardened-r2 x86_64)
=================================================================
System uname: Linux-4.5.7-hardened-r2-x86_64-Intel-R-_Core-TM-_i7-3770_CPU_@_3.40GHz-with-gentoo-2.2
KiB Mem:    16157888 total,   1512808 free
KiB Swap:   16777212 total,  16715216 free
Timestamp of repository gentoo: Mon, 20 Jun 2016 19:02:12 +0000
sh bash 4.3_p42-r1
ld GNU ld (Gentoo 2.25.1 p1.1) 2.25.1
distcc 3.2rc1 x86_64-pc-linux-gnu [disabled]
app-shells/bash:          4.3_p42-r1::gentoo
dev-java/java-config:     2.2.0-r3::gentoo
dev-lang/perl:            5.20.2::gentoo
dev-lang/python:          2.7.10-r1::gentoo, 3.4.3-r1::gentoo
dev-util/cmake:           3.3.1-r1::gentoo
dev-util/pkgconfig:       0.28-r2::gentoo
sys-apps/baselayout:      2.2::gentoo
sys-apps/openrc:          0.19.1::gentoo
sys-apps/sandbox:         2.10-r1::gentoo
sys-devel/autoconf:       2.13::gentoo, 2.69::gentoo
sys-devel/automake:       1.9.6-r4::gentoo, 1.10.3-r1::gentoo, 1.11.6-r1::gentoo, 1.13.4::gentoo, 1.14.1::gentoo, 1.15::gentoo
sys-devel/binutils:       2.25.1-r1::gentoo
sys-devel/gcc:            4.9.3::gentoo
sys-devel/gcc-config:     1.7.3::gentoo
sys-devel/libtool:        2.4.6::gentoo
sys-devel/make:           4.1-r1::gentoo
sys-kernel/linux-headers: 4.3::gentoo (virtual/os-headers)
sys-libs/glibc:           2.22-r4::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"
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 /opt/openfire/resources/security/ /usr/lib64/fax /usr/share/config /usr/share/easy-rsa /usr/share/gnupg/qualified.txt /usr/share/themes/oxygen-gtk/gtk-2.0 /var/lib/hsqldb /var/spool/fax/etc /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="--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 alsa amd64 apache berkdb bluetooth branding bzip2 cairo cdda cdr cgi cli consolekit cracklib crypt cxx dbus declarative designer dri dts dvd dvdr egl eglfs emboss encode evdev exif fam ffmpeg firefox flac fortran gdbm gif glamor gnuplot gpm graphtft gtk gudev gui gzip hdf5 iconv introspection ipv6 jpeg kde kipi lcms ldap libnotify logrotate mad minizip mmx mmxext mng modules mp3 mp4 mpeg mpi mssql multilib multimedia mysqli ncurses nls nptl ogg opengl openmp openmpi pam pango pax_kernel pcre pdf phonon plasma png policykit postproc ppds qml qt3support qt4 qt5 readline rendering scripts sddm sdl seccomp semantic-desktop session spell sse sse2 ssl sslv2 startup-notification svg swscale system-harfbuzz system-sqlite tcpd thinkpad tiff truetype udev udisks unicode upower usb usbredir v4l2 vorbis wav widgets wxwidgets x264 xattr xcb xcomposite xinerama xml xscreensaver xtpax xv xvid xvmc zenmap zlib" ABI_X86="64" ALSA_CARDS="hda-intel" 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="evdev synaptics" KERNEL="linux" 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
Comment 1 Toralf Förster gentoo-dev 2016-06-21 16:17:07 UTC
Created attachment 438268 [details]
automake.out
Comment 2 Toralf Förster gentoo-dev 2016-06-21 16:17:10 UTC
Created attachment 438270 [details]
emerge-history.txt
Comment 3 Toralf Förster gentoo-dev 2016-06-21 16:17:13 UTC
Created attachment 438272 [details]
environment
Comment 4 Toralf Förster gentoo-dev 2016-06-21 16:17:16 UTC
Created attachment 438274 [details]
sci-libs:spqr-1.2.3-r1:20160620-215840.log
Comment 5 Alessandro Molari 2016-10-30 11:48:10 UTC
Are there any news?

I'm still getting the same error.
Comment 6 Jérôme Borme 2017-04-12 11:32:38 UTC
The stable version sci-libs/1.2.3-r1 is affected by the automake bug, but the version 1.3.1 (~amd64, in portage tree) builds.
Comment 7 Xu Weiping 2019-09-04 03:12:01 UTC
This problem still exists
Comment 8 François Bissey 2019-09-04 04:16:41 UTC
I have a more recent version of spqr in the sage-on-gentoo overlay which should have any issues. I offered to proxy-maintain on another suitesparse related bug.
Comment 9 Larry the Git Cow gentoo-dev 2020-03-02 17:21:23 UTC
The bug has been referenced in the following commit(s):

https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=1703eb051609561a08bf1f267a30e9e68f9ef60a

commit 1703eb051609561a08bf1f267a30e9e68f9ef60a
Author:     Michael Orlitzky <mjo@gentoo.org>
AuthorDate: 2020-03-02 00:44:48 +0000
Commit:     Michael Orlitzky <mjo@gentoo.org>
CommitDate: 2020-03-02 17:20:46 +0000

    sci-libs/spqr: new version 2.0.9.
    
    Update to EAPI=7 and fix the HOMEPAGE, SRC_URI, and LICENSE. This is
    part of a larger SuiteSparse v5.4.0 upgrade thanks to François Bissey
    whose sage-on-gentoo ebuilds I'm using. There's a newer release
    (v5.7.1) of SuiteSparse, but v5.4.0 has seen more testing.
    
    This version uses a "partition" USE flag instead of "metis", to more
    closely match the terminology used upstream and by sci-libs/cholmod.
    
    Bug: https://bugs.gentoo.org/492484
    Bug: https://bugs.gentoo.org/586582
    Bug: https://bugs.gentoo.org/654548
    Package-Manager: Portage-2.3.84, Repoman-2.3.20
    Signed-off-by: Michael Orlitzky <mjo@gentoo.org>

 sci-libs/spqr/Manifest          |  1 +
 sci-libs/spqr/metadata.xml      |  4 ++++
 sci-libs/spqr/spqr-2.0.9.ebuild | 33 +++++++++++++++++++++++++++++++++
 3 files changed, 38 insertions(+)
Comment 10 Pacho Ramos gentoo-dev 2020-07-21 17:50:07 UTC
(In reply to Larry the Git Cow from comment #9)
> The bug has been referenced in the following commit(s):
> 
> https://gitweb.gentoo.org/repo/gentoo.git/commit/
> ?id=1703eb051609561a08bf1f267a30e9e68f9ef60a
> 
> commit 1703eb051609561a08bf1f267a30e9e68f9ef60a
> Author:     Michael Orlitzky <mjo@gentoo.org>
> AuthorDate: 2020-03-02 00:44:48 +0000
> Commit:     Michael Orlitzky <mjo@gentoo.org>
> CommitDate: 2020-03-02 17:20:46 +0000
> 
>     sci-libs/spqr: new version 2.0.9.
>     
>     Update to EAPI=7 and fix the HOMEPAGE, SRC_URI, and LICENSE. This is
>     part of a larger SuiteSparse v5.4.0 upgrade thanks to François Bissey
>     whose sage-on-gentoo ebuilds I'm using. There's a newer release
>     (v5.7.1) of SuiteSparse, but v5.4.0 has seen more testing.
>     
>     This version uses a "partition" USE flag instead of "metis", to more
>     closely match the terminology used upstream and by sci-libs/cholmod.
>     
>     Bug: https://bugs.gentoo.org/492484
>     Bug: https://bugs.gentoo.org/586582
>     Bug: https://bugs.gentoo.org/654548
>     Package-Manager: Portage-2.3.84, Repoman-2.3.20
>     Signed-off-by: Michael Orlitzky <mjo@gentoo.org>
> 
>  sci-libs/spqr/Manifest          |  1 +
>  sci-libs/spqr/metadata.xml      |  4 ++++
>  sci-libs/spqr/spqr-2.0.9.ebuild | 33 +++++++++++++++++++++++++++++++++
>  3 files changed, 38 insertions(+)