Gentoo Websites Logo
Go to: Gentoo Home Documentation Forums Lists Bugs Planet Store Wiki Get Gentoo!
Bug 601694 - dev-python/statsmodels-0.6.1 with sci-libs/scipy-0.18.1 fails tests
Summary: dev-python/statsmodels-0.6.1 with sci-libs/scipy-0.18.1 fails tests
Status: UNCONFIRMED
Alias: None
Product: Gentoo Linux
Classification: Unclassified
Component: Current packages (show other bugs)
Hardware: All Linux
: Normal normal (vote)
Assignee: Python Gentoo Team
URL:
Whiteboard:
Keywords:
Depends on:
Blocks:
 
Reported: 2016-12-05 17:19 UTC by eroen
Modified: 2016-12-05 20:27 UTC (History)
2 users (show)

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


Attachments
build.log (build.log,530.75 KB, text/plain)
2016-12-05 17:19 UTC, eroen
Details

Note You need to log in before you can comment on or make changes to this bug.
Description eroen 2016-12-05 17:19:56 UTC
Created attachment 455154 [details]
build.log

Tests pass with sci-libs/scipy-0.16.1.

statsmodels.discrete.tests.test_sandwich_cov.TestNegbinCluExposure.test_basic
statsmodels.discrete.tests.test_sandwich_cov.TestNegbinCluExposureFit.test_basic

The following three have previously been reported upstream (https://github.com/statsmodels/statsmodels/issues/3128):
statsmodels.miscmodels.tests.test_tmodel.TestTModel.test_basic
statsmodels.tools.tests.test_rootfinding.test_brentq_expanding
statsmodels.tsa.vector_ar.tests.test_svar.TestSVAR.test_B


======================================================================
FAIL: statsmodels.discrete.tests.test_sandwich_cov.TestNegbinCluExposure.test_basic
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib64/python2.7/site-packages/nose/case.py", line 197, in runTest
    self.test(*self.arg)
  File "/var/tmp/portage/dev-python/statsmodels-0.6.1/work/statsmodels-0.6.1-python2_7/lib/statsmodels/discrete/tests/test_sandwich_cov.py", line 62, in test_basic
    assert_allclose(self.bse_rob / self.corr_fact, res2_bse, 1e-5)
  File "/usr/lib64/python2.7/site-packages/numpy/testing/utils.py", line 1359, in assert_allclose
    verbose=verbose, header=header)
  File "/usr/lib64/python2.7/site-packages/numpy/testing/utils.py", line 713, in assert_array_compare
    raise AssertionError(msg)
AssertionError: 
Not equal to tolerance rtol=1e-05, atol=0

(mismatch 25.0%)
 x: array([ 0.14271 ,  0.179973,  0.625433,  0.212755])
 y: array([ 0.14271 ,  0.179972,  0.625427,  0.212762])

======================================================================
FAIL: statsmodels.discrete.tests.test_sandwich_cov.TestNegbinCluExposureFit.test_basic
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib64/python2.7/site-packages/nose/case.py", line 197, in runTest
    self.test(*self.arg)
  File "/var/tmp/portage/dev-python/statsmodels-0.6.1/work/statsmodels-0.6.1-python2_7/lib/statsmodels/discrete/tests/test_sandwich_cov.py", line 62, in test_basic
    assert_allclose(self.bse_rob / self.corr_fact, res2_bse, 1e-5)
  File "/usr/lib64/python2.7/site-packages/numpy/testing/utils.py", line 1359, in assert_allclose
    verbose=verbose, header=header)
  File "/usr/lib64/python2.7/site-packages/numpy/testing/utils.py", line 713, in assert_array_compare
    raise AssertionError(msg)
AssertionError: 
Not equal to tolerance rtol=1e-05, atol=0

(mismatch 25.0%)
 x: array([ 0.14271 ,  0.179973,  0.625433,  0.212755])
 y: array([ 0.14271 ,  0.179972,  0.625427,  0.212762])

======================================================================
FAIL: statsmodels.miscmodels.tests.test_tmodel.TestTModel.test_basic
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib64/python2.7/site-packages/nose/case.py", line 197, in runTest
    self.test(*self.arg)
  File "/var/tmp/portage/dev-python/statsmodels-0.6.1/work/statsmodels-0.6.1-python2_7/lib/statsmodels/miscmodels/tests/test_tmodel.py", line 86, in test_basic
    assert_allclose(res1.params[-2], res2.dof, rtol=1e-5)
  File "/usr/lib64/python2.7/site-packages/numpy/testing/utils.py", line 1359, in assert_allclose
    verbose=verbose, header=header)
  File "/usr/lib64/python2.7/site-packages/numpy/testing/utils.py", line 713, in assert_array_compare
    raise AssertionError(msg)
AssertionError: 
Not equal to tolerance rtol=1e-05, atol=0

(mismatch 100.0%)
 x: array(2.837219361144385)
 y: array(2.837183)

======================================================================
FAIL: statsmodels.tools.tests.test_rootfinding.test_brentq_expanding
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib64/python2.7/site-packages/nose/case.py", line 197, in runTest
    self.test(*self.arg)
  File "/var/tmp/portage/dev-python/statsmodels-0.6.1/work/statsmodels-0.6.1-python2_7/lib/statsmodels/tools/tests/test_rootfinding.py", line 84, in test_brentq_expanding
    assert_equal(info1[k], info.__dict__[k])
  File "/usr/lib64/python2.7/site-packages/numpy/testing/utils.py", line 355, in assert_equal
    raise AssertionError(msg)
AssertionError: 
Items are not equal:
 ACTUAL: 63
 DESIRED: 66

======================================================================
FAIL: statsmodels.tsa.vector_ar.tests.test_svar.TestSVAR.test_B
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib64/python2.7/site-packages/nose/case.py", line 197, in runTest
    self.test(*self.arg)
  File "/var/tmp/portage/dev-python/statsmodels-0.6.1/work/statsmodels-0.6.1-python2_7/lib/statsmodels/tsa/vector_ar/tests/test_svar.py", line 42, in test_B
    assert_almost_equal(self.res1.B, self.res2.B, DECIMAL_4)
  File "/usr/lib64/python2.7/site-packages/numpy/testing/utils.py", line 497, in assert_almost_equal
    return assert_array_almost_equal(actual, desired, decimal, err_msg)
  File "/usr/lib64/python2.7/site-packages/numpy/testing/utils.py", line 892, in assert_array_almost_equal
    precision=decimal)
  File "/usr/lib64/python2.7/site-packages/numpy/testing/utils.py", line 713, in assert_array_compare
    raise AssertionError(msg)
AssertionError: 
Arrays are not almost equal to 4 decimals

(mismatch 33.3333333333%)
 x: array([[-0.0076,  0.    ,  0.    ],
       [ 0.    , -0.0051,  0.    ],
       [ 0.    ,  0.    , -0.0207]])
 y: array([[ 0.0076,  0.    ,  0.    ],
       [ 0.    ,  0.0051,  0.    ],
       [ 0.    ,  0.    ,  0.0207]])

----------------------------------------------------------------------
Ran 3333 tests in 514.848s

FAILED (SKIP=24, failures=5)
 * ERROR: dev-python/statsmodels-0.6.1::gentoo failed (test phase):
 *   Failed to run 'nosetests --verbosity=3'
 * 
 * Call stack:
 *     ebuild.sh, line  115:  Called src_test
 *   environment, line 3727:  Called distutils-r1_src_test
 *   environment, line 1022:  Called _distutils-r1_run_foreach_impl 'python_test'
 *   environment, line  354:  Called python_foreach_impl 'distutils-r1_run_phase' 'python_test'
 *   environment, line 3229:  Called multibuild_foreach_variant '_python_multibuild_wrapper' 'distutils-r1_run_phase' 'python_test'
 *   environment, line 2324:  Called _multibuild_run '_python_multibuild_wrapper' 'distutils-r1_run_phase' 'python_test'
 *   environment, line 2322:  Called _python_multibuild_wrapper 'distutils-r1_run_phase' 'python_test'
 *   environment, line  630:  Called distutils-r1_run_phase 'python_test'
 *   environment, line  954:  Called python_test
 *   environment, line 3606:  Called virtualmake '--verbosity=3'
 *   environment, line 4351:  Called virtx 'nosetests' '--verbosity=3'
 *   environment, line 4398:  Called die
 * The specific snippet of code:
 *       [[ ${retval} -ne 0 ]] && die "Failed to run '$@'";
Comment 1 eroen 2016-12-05 17:20:51 UTC
localhost ~ # emerge --info '=dev-python/statsmodels-0.6.1::gentoo' scipy
Portage 2.3.0 (python 3.4.5-final-0, default/linux/amd64/13.0, gcc-4.9.3, glibc-2.22-r4, 4.4.6-gentoo x86_64)
=================================================================
                         System Settings
=================================================================
System uname: Linux-4.4.6-gentoo-x86_64-Intel-R-_Core-TM-_i5-2520M_CPU_@_2.50GHz-with-gentoo-2.2
KiB Mem:     4043380 total,   2740660 free
KiB Swap:          0 total,         0 free
Timestamp of repository gentoo: Mon, 05 Dec 2016 00:45:01 +0000
sh bash 4.3_p48
ld GNU ld (Gentoo 2.25.1 p1.1) 2.25.1
app-shells/bash:          4.3_p48::gentoo
dev-lang/perl:            5.22.2::gentoo
dev-lang/python:          2.7.12::gentoo, 3.4.5::gentoo
dev-util/cmake:           3.5.2-r1::gentoo
dev-util/pkgconfig:       0.28-r2::gentoo
sys-apps/baselayout:      2.2::gentoo
sys-apps/openrc:          0.22.4::gentoo
sys-apps/sandbox:         2.10-r1::gentoo
sys-devel/autoconf:       2.69::gentoo
sys-devel/automake:       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: -1000

ACCEPT_KEYWORDS="amd64"
ACCEPT_LICENSE="* -@EULA"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-O2 -pipe"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/gconf /etc/gentoo-release /etc/sandbox.d /etc/terminfo"
CXXFLAGS="-O2 -pipe"
DISTDIR="/usr/portage/distfiles"
FCFLAGS="-O2 -pipe"
FEATURES="assume-digests binpkg-logs config-protect-if-modified distlocks ebuild-locks fixlafiles merge-sync news parallel-fetch preserve-libs protect-owned sandbox sfperms strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr"
FFLAGS="-O2 -pipe"
GENTOO_MIRRORS="http://distfiles.gentoo.org"
LDFLAGS="-Wl,-O1 -Wl,--as-needed"
MAKEOPTS=""
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="acl amd64 berkdb bindist bzip2 cli cracklib crypt cxx dri fortran gdbm iconv ipv6 mmx mmxext modules multilib ncurses nls nptl openmp pam pcre readline seccomp session sse sse2 ssl tcpd unicode xattr 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" 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" 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" 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, EMERGE_DEFAULT_OPTS, INSTALL_MASK, LANG, LC_ALL, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, USE_PYTHON

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

dev-python/statsmodels-0.6.1::gentoo was built with the following:
USE="test -doc -examples" ABI_X86="64" PYTHON_TARGETS="python2_7 python3_4 -python3_5"


sci-libs/scipy-0.18.1::gentoo was built with the following:
USE="-doc -sparse -test" ABI_X86="64" PYTHON_TARGETS="python2_7 python3_4 -python3_5"
LDFLAGS="-Wl,-O1 -Wl,--as-needed -shared"

localhost ~ # emerge -pqv '=dev-python/statsmodels-0.6.1::gentoo' scipy
[ebuild   R   ] sci-libs/scipy-0.18.1  USE="-doc -sparse {-test}" PYTHON_TARGETS="python2_7 python3_4 -python3_5" 
[ebuild   R   ] dev-python/statsmodels-0.6.1  USE="{test} -doc -examples" PYTHON_TARGETS="python2_7 python3_4 -python3_5" 

 * IMPORTANT: 12 news items need reading for repository 'gentoo'.
 * Use eselect news read to view new items.