Bug 681804 – =dev-python/numpy-1.14.5 fails numpy.f2py tests

• Product: Gentoo Linux
• Status: RESOLVED OBSOLETE

[Description Paolo Pedroni 2019-03-26 15:36:08 UTC]

Created attachment 570848 [details]
numpy-1.14.5:20190326-144031.log.gz

[...]
numpy.f2py.tests.test_assumed_shape.TestAssumedShapeSumExample.test_all ... ERROR
numpy.f2py.tests.test_block_docstring.TestBlockDocString.test_block_docstring ... ERROR
numpy.f2py.tests.test_callback.TestF77Callback.test_all ... ERROR
numpy.f2py.tests.test_callback.TestF77Callback.test_docstring ... ERROR
numpy.f2py.tests.test_callback.TestF77Callback.test_string_callback ... ERROR
numpy.f2py.tests.test_callback.TestF77Callback.test_string_callback_array ... ERROR
numpy.f2py.tests.test_common.TestCommonBlock.test_common_block ... ERROR
numpy.f2py.tests.test_kind.TestKind.test_all ... ERROR
numpy.f2py.tests.test_mixed.TestMixed.test_all ... ERROR
numpy.f2py.tests.test_mixed.TestMixed.test_docstring ... ERROR
numpy.f2py.tests.test_parameter.TestParameters.test_constant_both ... ERROR
numpy.f2py.tests.test_parameter.TestParameters.test_constant_compound_int ... ERROR
numpy.f2py.tests.test_parameter.TestParameters.test_constant_integer_int ... ERROR
numpy.f2py.tests.test_parameter.TestParameters.test_constant_integer_long ... ERROR
numpy.f2py.tests.test_parameter.TestParameters.test_constant_no ... ERROR
numpy.f2py.tests.test_parameter.TestParameters.test_constant_non_compound_int ... ERROR
numpy.f2py.tests.test_parameter.TestParameters.test_constant_real_double ... ERROR
numpy.f2py.tests.test_parameter.TestParameters.test_constant_real_single ... ERROR
numpy.f2py.tests.test_parameter.TestParameters.test_constant_sum ... ERROR
numpy.f2py.tests.test_regression.TestIntentInOut.test_inout ... ERROR
numpy.f2py.tests.test_return_character.TestF77ReturnCharacter.test_all ... ERROR
numpy.f2py.tests.test_return_character.TestF90ReturnCharacter.test_all ... ERROR
numpy.f2py.tests.test_return_complex.TestF77ReturnComplex.test_all ... ERROR
numpy.f2py.tests.test_return_complex.TestF90ReturnComplex.test_all ... ERROR
numpy.f2py.tests.test_return_integer.TestF77ReturnInteger.test_all ... ERROR
numpy.f2py.tests.test_return_integer.TestF90ReturnInteger.test_all ... ERROR
numpy.f2py.tests.test_return_logical.TestF77ReturnLogical.test_all ... ERROR
numpy.f2py.tests.test_return_logical.TestF90ReturnLogical.test_all ... ERROR
numpy.f2py.tests.test_return_real.TestCReturnReal.test_all ... ok
numpy.f2py.tests.test_return_real.TestF77ReturnReal.test_all ... ERROR
numpy.f2py.tests.test_return_real.TestF90ReturnReal.test_all ... ERROR
numpy.f2py.tests.test_size.TestSizeSumExample.test_all ... ERROR
numpy.f2py.tests.test_size.TestSizeSumExample.test_flatten ... ERROR
numpy.f2py.tests.test_size.TestSizeSumExample.test_transpose ... ERROR
numpy.f2py.tests.test_string.TestString.test_char ... ERROR
[...]
======================================================================
ERROR: numpy.f2py.tests.test_string.TestString.test_char
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib64/python2.7/site-packages/nose/case.py", line 381, in setUp
    try_run(self.inst, ('setup', 'setUp'))
  File "/usr/lib64/python2.7/site-packages/nose/util.py", line 471, in try_run
    return func()
  File "/var/tmp/portage/dev-python/numpy-1.14.5/work/numpy-1.14.5-python2_7/test/lib/numpy/testing/nose_tools/decorators.py", line 217, in knownfailer
    return f(*args, **kwargs)
  File "/var/tmp/portage/dev-python/numpy-1.14.5/work/numpy-1.14.5-python2_7/test/lib/numpy/f2py/tests/util.py", line 359, in setup
    module_name=self.module_name)
  File "/var/tmp/portage/dev-python/numpy-1.14.5/work/numpy-1.14.5-python2_7/test/lib/numpy/f2py/tests/util.py", line 79, in wrapper
    memo[key] = func(*a, **kw)
  File "/var/tmp/portage/dev-python/numpy-1.14.5/work/numpy-1.14.5-python2_7/test/lib/numpy/f2py/tests/util.py", line 150, in build_module
    return import_module(module_name)
  File "/usr/lib64/python2.7/importlib/__init__.py", line 37, in import_module
    __import__(name)
ImportError: /var/tmp/portage/dev-python/numpy-1.14.5/temp/tmp6e6iHq/_test_ext_module_5403.so: undefined symbol: f2pyinitchar_test_

----------------------------------------------------------------------
Ran 7027 tests in 207.542s

FAILED (KNOWNFAIL=13, SKIP=24, errors=34)

All failed tests have problems with undefined symbols.

# emerge --info =dev-python/numpy-1.14.5
Portage 2.3.62 (python 3.6.5-final-0, default/linux/amd64/17.1/desktop/plasma/systemd, gcc-8.3.0, glibc-2.28-r5, 4.19.27-gentoo-r1 x86_64)
=================================================================
                         System Settings
=================================================================
System uname: Linux-4.19.27-gentoo-r1-x86_64-AMD_Phenom-tm-_II_X6_1100T_Processor-with-gentoo-2.6
KiB Mem:    12016052 total,   3607672 free
KiB Swap:   12550140 total,  12542460 free
Timestamp of repository gentoo: Mon, 25 Mar 2019 07:45:01 +0000
Head commit of repository gentoo: 4e811f86ea55c9fa4c4812e980c6ec2fc59fa5e6
sh dash 0.5.9.1-r3
ld GNU gold (Gentoo 2.30 p5 2.30.0) 1.15
distcc 3.3.2 x86_64-pc-linux-gnu [enabled]
ccache version 3.3.4 [disabled]
app-shells/bash:          4.4_p23-r1::gentoo
dev-java/java-config:     2.2.0-r4::gentoo
dev-lang/perl:            5.26.2::gentoo
dev-lang/python:          2.7.15::gentoo, 3.6.5::gentoo
dev-util/ccache:          3.3.4-r1::gentoo
dev-util/cmake:           3.9.6::gentoo
dev-util/pkgconfig:       0.29.2::gentoo
sys-apps/baselayout:      2.6-r1::gentoo
sys-apps/sandbox:         2.13::gentoo
sys-devel/autoconf:       2.13-r1::gentoo, 2.69-r4::gentoo
sys-devel/automake:       1.16.1-r1::gentoo
sys-devel/binutils:       2.30-r4::gentoo
sys-devel/gcc:            8.3.0::gentoo
sys-devel/gcc-config:     2.0::gentoo
sys-devel/libtool:        2.4.6-r3::gentoo
sys-devel/make:           4.2.1-r4::gentoo
sys-kernel/linux-headers: 4.17::gentoo (virtual/os-headers)
sys-libs/glibc:           2.28-r5::gentoo
Repositories:

gentoo
    location: /usr/portage
    sync-type: rsync
    sync-uri: rsync://rsync.europe.gentoo.org/gentoo-portage
    priority: -1000
    sync-rsync-verify-jobs: 1
    sync-rsync-verify-metamanifest: yes
    sync-rsync-extra-opts: 
    sync-rsync-verify-max-age: 24

x-portage
    location: /usr/local/portage
    masters: gentoo
    priority: 0

ACCEPT_KEYWORDS="amd64"
ACCEPT_LICENSE="* -@EULA"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-O2 -pipe -frecord-gcc-switches -march=amdfam10 -flto=7"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc /usr/lib64/libreoffice/program/sofficerc /usr/share/config /usr/share/gnupg/qualified.txt"
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="-O2 -pipe -frecord-gcc-switches -march=amdfam10 -flto=7"
DISTDIR="/usr/portage/distfiles"
EMERGE_DEFAULT_OPTS="--keep-going y --with-bdeps y"
ENV_UNSET="DBUS_SESSION_BUS_ADDRESS DISPLAY GOBIN PERL5LIB PERL5OPT PERLPREFIX PERL_CORE PERL_MB_OPT PERL_MM_OPT XAUTHORITY XDG_CACHE_HOME XDG_CONFIG_HOME XDG_DATA_HOME XDG_RUNTIME_DIR"
FCFLAGS="-O2 -pipe -frecord-gcc-switches -march=amdfam10 -flto=7"
FEATURES="assume-digests binpkg-docompress binpkg-dostrip binpkg-logs cgroup compress-build-logs config-protect-if-modified distcc distlocks ebuild-locks ipc-sandbox merge-sync multilib-strict network-sandbox news parallel-fetch pid-sandbox preserve-libs protect-owned sandbox sfperms split-elog split-log strict test unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr"
FFLAGS="-O2 -pipe -frecord-gcc-switches -march=amdfam10 -flto=7"
GENTOO_MIRRORS="http://gentoo.modulix.net/gentoo/ http://mirrors.evowise.com/gentoo/ http://ftp.fau.de/gentoo http://gentoo.mirrors.ovh.net/gentoo-distfiles/ http://ftp.snt.utwente.nl/pub/os/linux/gentoo"
LANG="it_IT.UTF-8"
LDFLAGS="-Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -Wl,--sort-common -flto=7"
LINGUAS="it it_IT"
MAKEOPTS="-j15 -l6"
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 aalib acl acpi activities adns alsa amd64 ao audiofile bash-completion bluetooth branding bzip2 cairo caps cdda cddb cdparanoia cdr cli crypt css cups curl cxx dbus declarative dga djvu dri dts dvd dvdr emboss encode exif expat fbcon ffmpeg fftw flac fontconfig fortran ftp gd gdbm geoip gif gimp glamor gmp gnutls gphoto2 gpm graphviz gtk handbook iconv icu idn imagemagick imlib ipv6 java javascript jbig jpeg jpeg2k kde kipi kwallet lame lcms libass libcaca libnotify libsamplerate libtirpc lm_sensors lua lzma lzo mad mmap mng mp3 mp4 mpeg mplayer multilib musicbrainz ncurses nls nptl nsplugin offensive ogg openal opengl openmp pam pango pcre pdf phonon plasma png policykit postscript ppds pulseaudio qml qt5 rdesktop readline recode samba scanner sctp sdl seccomp sndfile sockets speex spell sqlite sqlite3 ssl startup-notification svg symlink syslog systemd sysvipc taglib test theora threads tidy tiff truetype udev udisks unicode upower usb vaapi vcd vdpau vim-syntax vnc vorbis wayland widgets win32codecs wmf wxwidgets x264 xattr xcb xcomposite xine xml xpm xscreensaver xv xvid yahoo zlib" ABI_X86="64" ALSA_CARDS="hda-intel virmidi" 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="karbon sheets words" CAMERAS="kodak ptp2" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" CPU_FLAGS_X86="3dnow 3dnowext mmx mmxext popcnt sse sse2 sse3 sse4a" CURL_SSL="gnutls" ELIBC="glibc" GPSD_PROTOCOLS="ashtech aivdm earthmate evermore fv18 garmin garmintxt gpsclock isync itrax mtk3301 nmea ntrip navcom oceanserver oldstyle oncore rtcm104v2 rtcm104v3 sirf skytraq superstar2 timing tsip tripmate tnt ublox ubx" GRUB_PLATFORMS="pc" INPUT_DEVICES="libinput" KERNEL="linux" L10N="it en" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="nlpsolver" NETBEANS_MODULES="apisupport cnd groovy gsf harness ide identity j2ee java mobility nb php profiler soa visualweb webcommon websvccommon xml" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php5-6 php7-1" POSTGRES_TARGETS="postgres9_5 postgres10" PYTHON_SINGLE_TARGET="python3_6" PYTHON_TARGETS="python2_7 python3_6 pypy pypy3" RUBY_TARGETS="ruby24" SANE_BACKENDS="epson epson2" USERLAND="GNU" VIDEO_CARDS="radeon r600" 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_BINHOST, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS

=================================================================
                        Package Settings
=================================================================

dev-python/numpy-1.14.5::gentoo was built with the following:
USE="-doc -lapack -test" ABI_X86="(64)" PYTHON_TARGETS="python2_7 python3_6 -python3_5 (-python3_7)"
CFLAGS="-O2 -pipe -frecord-gcc-switches -march=amdfam10 -flto=7 -fno-lto -fno-strict-aliasing"
CXXFLAGS="-O2 -pipe -frecord-gcc-switches -march=amdfam10 -flto=7 -fno-lto -fno-strict-aliasing"
LDFLAGS="-Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -Wl,--sort-common -flto=7 -fno-lto -shared"

# emerge -1pqv =dev-python/numpy-1.14.5
[ebuild   R   ] dev-python/numpy-1.14.5  USE="test* -doc -lapack" PYTHON_TARGETS="python2_7 python3_6 -python3_5 (-python3_7)"