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Bug 601534 - dev-python/pytables-3.3.0 with dev-libs/c-blosc-1.11.1[-zstd] fails tests - ValueError: compression library ``blosc:zstd`` is not supported; it must be one of: zlib, lzo, bzip2, blosc, blosc:blosclz, blosc:lz4, blosc:lz4hc, blosc:snappy, blosc:zlib
Summary: dev-python/pytables-3.3.0 with dev-libs/c-blosc-1.11.1[-zstd] fails tests - V...
Status: RESOLVED FIXED
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: TESTFAILURE
Depends on:
Blocks:
 
Reported: 2016-12-03 18:32 UTC by eroen
Modified: 2020-06-06 22:13 UTC (History)
1 user (show)

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


Attachments
build.log (build.log,111.16 KB, text/plain)
2016-12-03 18:32 UTC, eroen
Details

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Description eroen 2016-12-03 18:32:06 UTC
Created attachment 455000 [details]
build.log

>>> Test phase: dev-python/pytables-3.3.0
 * python2_7: running distutils-r1_run_phase python_test
-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
PyTables version:    3.3.0
HDF5 version:        1.8.17
NumPy version:       1.10.4
Numexpr version:     2.6.1 (not using Intel's VML/MKL)
Zlib version:        1.2.8 (in Python interpreter)
LZO version:         2.08 (Jun 29 2014)
BZIP2 version:       1.0.6 (6-Sept-2010)
Blosc version:       1.11.1 (2016-09-03)
Blosc compressors:   blosclz (1.0.5), lz4 (1.7.1), lz4hc (1.7.1), snappy (unknown), zlib (1.2.8)
Blosc filters:       shuffle, bitshuffle
Cython version:      0.22
Python version:      2.7.12 (default, Dec  1 2016, 03:29:04) 
[GCC 4.9.3]
Platform:            Linux-4.4.6-gentoo-x86_64-Intel-R-_Core-TM-_i5-2520M_CPU_@_2.50GHz-with-gentoo-2.2
Byte-ordering:       little
Detected cores:      4
Default encoding:    ascii
Default FS encoding: UTF-8
Default locale:      (en_US, UTF-8)
-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
Performing only a light (yet comprehensive) subset of the test suite.
If you want a more complete test, try passing the --heavy flag to this script
(or set the 'heavy' parameter in case you are using tables.test() call).
The whole suite will take more than 4 hours to complete on a relatively
modern CPU and around 512 MB of main memory.
-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=
Traceback (most recent call last):
  File "tables/tests/test_all.py", line 142, in <module>
    unittest.main(defaultTest='tables.tests.suite')
  File "/usr/lib64/python2.7/unittest/main.py", line 94, in __init__
    self.parseArgs(argv)
  File "/usr/lib64/python2.7/unittest/main.py", line 149, in parseArgs
    self.createTests()
  File "/usr/lib64/python2.7/unittest/main.py", line 158, in createTests
    self.module)
  File "/usr/lib64/python2.7/unittest/loader.py", line 130, in loadTestsFromNames
    suites = [self.loadTestsFromName(name, module) for name in names]
  File "/usr/lib64/python2.7/unittest/loader.py", line 115, in loadTestsFromName
    test = obj()
  File "/var/tmp/portage/dev-python/pytables-3.3.0/work/tables-3.3.0-python2_7/lib/tables/tests/test_all.py", line 71, in suite
    __import__(name)
  File "/var/tmp/portage/dev-python/pytables-3.3.0/work/tables-3.3.0-python2_7/lib/tables/tests/test_create.py", line 662, in <module>
    class FiltersCaseBloscZstd(FiltersTreeTestCase):
  File "/var/tmp/portage/dev-python/pytables-3.3.0/work/tables-3.3.0-python2_7/lib/tables/tests/test_create.py", line 663, in FiltersCaseBloscZstd
    filters = Filters(shuffle=False, complevel=1, complib="blosc:zstd")
  File "/var/tmp/portage/dev-python/pytables-3.3.0/work/tables-3.3.0-python2_7/lib/tables/filters.py", line 326, in __init__
    % (complib, ", ".join(all_complibs)))
ValueError: compression library ``blosc:zstd`` is not supported; it must be one of: zlib, lzo, bzip2, blosc, blosc:blosclz, blosc:lz4, blosc:lz4hc, blosc:snappy, blosc:zlib
 * ERROR: dev-python/pytables-3.3.0::gentoo failed (test phase):
 *   (no error message)
 * 
 * Call stack:
 *     ebuild.sh, line  115:  Called src_test
 *   environment, line 2647:  Called distutils-r1_src_test
 *   environment, line  824:  Called _distutils-r1_run_foreach_impl 'python_test'
 *   environment, line  315:  Called python_foreach_impl 'distutils-r1_run_phase' 'python_test'
 *   environment, line 2144:  Called multibuild_foreach_variant '_python_multibuild_wrapper' 'distutils-r1_run_phase' 'python_test'
 *   environment, line 1447:  Called _multibuild_run '_python_multibuild_wrapper' 'distutils-r1_run_phase' 'python_test'
 *   environment, line 1445:  Called _python_multibuild_wrapper 'distutils-r1_run_phase' 'python_test'
 *   environment, line  515:  Called distutils-r1_run_phase 'python_test'
 *   environment, line  756:  Called python_test
 *   environment, line 2526:  Called die
 * The specific snippet of code:
 *       ${EPYTHON} tables/tests/test_all.py || die
Comment 1 eroen 2016-12-03 18:33:25 UTC
localhost ~ # emerge --info '=dev-python/pytables-3.3.0::gentoo' c-blosc
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,   3537184 free
KiB Swap:          0 total,         0 free
Timestamp of repository gentoo: Sat, 03 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" 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, 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-libs/c-blosc-1.11.1::gentoo was built with the following:
USE="lz4 snappy zlib -static-libs -test -zstd" ABI_X86="64" CPU_FLAGS_X86="-avx2"

localhost ~ # emerge -pqv '=dev-python/pytables-3.3.0::gentoo' c-blosc
[ebuild   R   ] dev-libs/c-blosc-1.11.1  USE="lz4 snappy zlib -static-libs {-test} -zstd" CPU_FLAGS_X86="-avx2" 
[ebuild  N    ] dev-python/pytables-3.3.0  USE="-doc -examples" PYTHON_TARGETS="python2_7 python3_4 -python3_5" 

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Comment 2 eroen 2016-12-03 18:49:18 UTC
Tests pass if dev-libs/c-blosc-1.11.1 is installed with USE="zstd".
Comment 3 Pacho Ramos gentoo-dev 2020-06-06 22:13:29 UTC
at least with 3.6.1 they pass even with c-blosc without the optional compressors enabled