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Bug 680014

Summary: dev-python/pandas-0.24.1 - AttributeError: type object 'SphinxDocString' has no attribute '_process_param'
Product: Gentoo Linux Reporter: Juergen Rose <rose>
Component: Current packagesAssignee: Gentoo Science Related Packages <sci>
Status: RESOLVED OBSOLETE    
Severity: normal CC: vdupras
Priority: Normal    
Version: unspecified   
Hardware: All   
OS: Linux   
Whiteboard:
Package list:
Runtime testing required: ---
Bug Depends on: 669408    
Bug Blocks:    
Attachments: build.log

Description Juergen Rose 2019-03-11 08:48:00 UTC 
Created attachment 568546 [details]
build.log

'MAKEOPTS=-j1 emerge -v1 pandas' fails with:
...
x86_64-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -march=broadwell -O2 -pipe /var/tmp/portage/dev-python/pandas-0.24.1/work/pandas-0.24.1-python3_6/temp.linux-x86_64-3.6/pandas/util/move.o -L/usr/lib64 -lpython3.6m -o /var/tmp/portage/dev-python/pandas-0.24.1/work/pandas-0.24.1-python3_6/lib/pandas/util/_move.cpython-36m-x86_64-linux-gnu.so
 * python3_6: running distutils-r1_run_phase python_compile_all
 * Scanning for an open DISPLAY to start Xvfb ...
 * Starting Xvfb on $DISPLAY=1 ...
Running Sphinx v1.7.6

Configuration error:
There is a programable error in your configuration file:

Traceback (most recent call last):
  File "/usr/lib64/python3.6/site-packages/sphinx/config.py", line 161, in __init__
    execfile_(filename, config)
  File "/usr/lib64/python3.6/site-packages/sphinx/util/pycompat.py", line 150, in execfile_
    exec_(code, _globals)
  File "conf.py", line 485, in <module>
    func = SphinxDocString._process_param
AttributeError: type object 'SphinxDocString' has no attribute '_process_param'

Traceback (most recent call last):
  File "make.py", line 339, in <module>
    sys.exit(main())
  File "make.py", line 335, in main
    return getattr(builder, args.command)()
  File "make.py", line 226, in html
    self._add_redirects()
  File "make.py", line 186, in _add_redirects
    with open(REDIRECTS_FILE) as mapping_fd:
FileNotFoundError: [Errno 2] No such file or directory: '/var/tmp/portage/dev-python/pandas-0.24.1/work/pandas-0.24.1-python3_6/lib/doc/redirects.csv'
 * ERROR: dev-python/pandas-0.24.1::gentoo failed (compile phase):
 *   Failed to run 'python3.6 make.py html'



root@lynx:/usr/local/portage/app-benchmarks(39)# emerge --info '=dev-python/pandas-0.24.1::gentoo'
Portage 2.3.62 (python 3.6.8-final-0, default/linux/amd64/17.0/desktop, gcc-8.3.0, glibc-2.28-r5, 5.0.0-gentoo x86_64)
=================================================================
                         System Settings
=================================================================
System uname: Linux-5.0.0-gentoo-x86_64-Intel-R-_Core-TM-_i7-6700HQ_CPU_@_2.60GHz-with-gentoo-2.6
KiB Mem:    15904024 total,   5332480 free
KiB Swap:   50331644 total,  50083028 free
Timestamp of repository gentoo: Mon, 11 Mar 2019 06:30:01 +0000
Head commit of repository gentoo: 24c81ff7185f768be1a5550d6cbaaf88f1c47daa
sh bash 5.0_p2-r2
ld GNU ld (Gentoo 2.32 p1) 2.32.0
distcc[14215] (dcc_trace_version) distcc 3.3.2 x86_64-pc-linux-gnu; built Dec 10 2018 00:43:48 [disabled]
app-shells/bash:          5.0_p2-r2::gentoo
dev-java/java-config:     2.2.0-r4::gentoo
dev-lang/perl:            5.28.0::gentoo
dev-lang/python:          2.7.16-r100::sage-on-gentoo, 3.6.8::gentoo, 3.7.2::gentoo
dev-util/cmake:           3.11.4-r1::gentoo
dev-util/pkgconfig:       0.29.2::gentoo
sys-apps/baselayout:      2.6-r1::gentoo
sys-apps/sandbox:         2.15::gentoo
sys-devel/autoconf:       2.13-r1::gentoo, 2.69-r4::gentoo
sys-devel/automake:       1.11.6-r3::gentoo, 1.13.4-r2::gentoo, 1.15.1-r2::gentoo, 1.16.1-r1::gentoo
sys-devel/binutils:       2.32::gentoo
sys-devel/gcc:            8.3.0::gentoo
sys-devel/gcc-config:     2.0::gentoo
sys-devel/libtool:        2.4.6-r5::gentoo
sys-devel/make:           4.2.1-r4::gentoo
sys-kernel/linux-headers: 5.0-r1::gentoo (virtual/os-headers)
sys-libs/glibc:           2.28-r5::gentoo
Repositories:

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

haskell
    location: /var/lib/layman/haskell
    masters: gentoo
    priority: 0

local
    location: /usr/local/portage
    masters: gentoo
    priority: 1

g-cpan
    location: /var/lib/cpan
    masters: gentoo
    priority: 2

ago
    location: /var/lib/layman/ago
    masters: gentoo
    priority: 50

imaging
    location: /var/lib/layman/imaging
    masters: gentoo
    priority: 50

octave
    location: /var/lib/layman/octave
    masters: gentoo
    priority: 50

sage-on-gentoo
    location: /var/lib/layman/sage-on-gentoo
    masters: gentoo science
    priority: 50

science
    location: /var/lib/layman/science
    masters: gentoo
    priority: 50

tlp
    location: /var/lib/layman/tlp
    masters: gentoo
    priority: 50

torbrowser
    location: /var/lib/layman/torbrowser
    masters: gentoo
    priority: 50

x11
    location: /var/lib/layman/x11
    masters: gentoo
    priority: 50

Installed sets: @system
ACCEPT_KEYWORDS="amd64 ~amd64"
ACCEPT_LICENSE="* -@EULA PUEL Intel-SDP dlj-1.1 skype-eula skype-4.0.0.7-copyright googleearth AdobeFlash-11.x cadsoft Oracle-BCLA-JavaSE MakeMKV-EULA NVIDIA-CUDA Nero-AAC-EULA GIMPS"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-march=broadwell -O2 -pipe"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc /etc/stunnel/stunnel.conf /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/php/apache2-php7.3/ext-active/ /etc/php/cgi-php7.3/ext-active/ /etc/php/cli-php7.3/ext-active/ /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=broadwell -O2 -pipe"
DISTDIR="/usr/portage/distfiles"
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"
FEATURES="assume-digests binpkg-docompress binpkg-dostrip binpkg-logs clean-logs config-protect-if-modified distlocks ebuild-locks fixlafiles ipc-sandbox merge-sync multilib-strict network-sandbox news parallel-fetch pid-sandbox preserve-libs protect-owned sandbox sfperms strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr"
FFLAGS="-march=broadwell -O2 -pipe"
GENTOO_MIRRORS="http://distfiles.gentoo.org"
LANG="en_US.UTF-8"
LDFLAGS="-Wl,-O1 -Wl,--as-needed"
LINGUAS="de en fr ru"
MAKEOPTS="-j9"
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="64bit R X Xaw3d a52 aac acl acpi admin afs alsa amd64 amr ao apache2 apng applet archive armadillo arpack asf aspell assistant atlas audacious audiofile aufs automap automount barcode bash-completion berkdb blas blast bluetooth bluray boost branding btrfs bzip2 cairo cdda cddb cdf cdio cdparanoia cdr cgi chm cilk clang cli cmake collada consolekit contrib crypt css cups curl cxx daap db dbi dbm dbus declarative designer devhelp device-mapper dga dia digitalradio djvu doc dot dri ds2490 ds9097 ds9097u dts dv dvb dvd dvdr dvi dynamicplugin eds egl elf emacs emboss emf encode epiphany evdev evo examples excel exif expat extensions extra extras faac faad fam ffmpeg fftw firefox fits flac fltk fontconfig foomaticdb fortran fortran95 fpm fpx ftp fuse gcj gd gdal gdbm gedit geoip geolocation geos gfortran gif gimp git glade glamor glib glpk gml gmp gnome gnome-keyring gnuplot gnutls gold gphoto2 gpm grammar graphics graphtft graphviz grass gsl gsm gstreamer gtk gtk3 gudev guile hdaps hddtemp hdf hdf5 hdri html http httpd hvm hwdb iconv icq icu id3tag ide imagemagick imap initramfs inotify introspection ipod ipv6 irda ithreads jadetex java jbig jit john jpeg jpeg2k kate kde kdepim kdrive kerberos keymap kpathsea kvm ladspa lame lapack latex lcms ldap lensfun libffi libgda libkms libnotify libsamplerate libtirpc live lm_sensors lua lzma lzo mad mail maildir mapnik math matroska media-library mercurial mikmod mng mod mono motif mozilla mp3 mp4 mpeg mpi mpi-threads mplayer mtp multilib multimedia musepack musicbrainz mysql mysqli nautilus ncurses neXt netcdf netpbm network networking nfs nls nntp nptl nsplugin ntfs ntp numpy obex objc ocaml ocr octave odbc ofa ogdi ogg opencv openexr opengl openmp openvg pam pango pcre pda pdf pdl2 perl plasma plotutils plugins png podcast policykit portaudio posix postgres postscript ppds ppp preview-latex proj projectm pstricks pulseaudio python q16 q32 qemu qhull qml qt5 quicktime raw readline reiserfs reports rle romio rpc rrdcgi rrdtool rtlsdr sage samba sasl schroedinger science sdk sdl seccomp secure-delete server session shout sip slang slp smart smbclient smp sms sndfile snmp soap sockets sound soup sox speex spell sql sqlite ssl startup-notification stlport subtitles subversion sudo suexec svg svm swig systemd szip t1lib tbb tcl tcpd tex tex4ht theora thesaurus thinkpad threads thunderbird tidy tiff tk tools truetype udev udisks unicode upower usb utempter v4l v4l2 vaapi vala valgrind vdpau video vim-syntax virt-network virtualbox visio vorbis vpx vtk wav wayland webdav webdav-serf webkit wifi wmf wxwidgets x264 x265 xa xattr xcb xen xetex xft xine xml xmlreader xmlrpc xpm xps xv xvid xvmc yaml youtube zlib zsh-completion zvbi" ABI_X86="64" ALSA_CARDS="intel8x0" APACHE2_MODULES="actions alias auth_basic auth_digest authn_anon authn_dbd authn_core authn_dbm authn_default authn_file authz_core authz_dbm authz_default authz_groupfile authz_host authz_owner authz_user autoindex cache cgid dav dav_fs dav_lock dbd deflate dir disk_cache env expires ext_filter file_cache filter headers ident imagemap include info lbmethod_byrequests log_config logio mem_cache mime mime_magic negotiation proxy proxy_ajp proxy_balancer proxy_connect proxy_http rewrite setenvif slotmem_shm so socache_shmcb speling status unique_id unixd userdir usertrack vhost_alias" APACHE2_MPMS="worker" CALLIGRA_FEATURES="karbon sheets words" CAMERAS="canon fuji ptp2" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog sensors thermal" CPU_FLAGS_X86="aes avx avx2 fma3 mmx mmxext popcnt sse sse2 sse3 sse4_1 sse4_2 ssse3" ELIBC="glibc" GPSD_PROTOCOLS="aivdm ashtech earthmate evermore fv18 garmin garmintxt gpsclock itrax mtk3301 navcom ntrip oceanserver oncore rtcm104v2 rtcm104v3 sirf superstar2 tnt tripmate tsip ublox nmea0183 nmea2000 passthrough" GRUB_PLATFORMS="emu efi-64 pc xen" INPUT_DEVICES="keyboard mouse evdev synaptics void" KERNEL="linux" L10N="de en fr ru" LCD_DEVICES="cfontz framebuffer glcd hd44780 mtxorb ncurses X lcd2usb lcdlinux png usblcd SureElec" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" LIRC_DEVICES="devinput" LLVM_TARGETS="NVPTX X86" NETBEANS_MODULES="apisupport cnd dlight enterprise ergonomics groovy gsf harness ide identity j2ee java mobility nb php profiler 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" QEMU_SOFTMMU_TARGETS="arm i386 x86_64" QEMU_USER_TARGETS="arm i386 x86_64" RUBY_TARGETS="ruby24" USERLAND="GNU" VIDEO_CARDS="nouveau displaylink" 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, LC_ALL, PORTAGE_BINHOST, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS



root@lynx:/usr/local/portage/app-benchmarks(40)# emerge -pqv '=dev-python/pandas-0.24.1::gentoo'
[ebuild     U ] dev-python/pandas-0.24.1 [0.23.4] USE="X doc* -full-support -minimal -test" PYTHON_TARGETS="python2_7 python3_6 -python3_5"
Comment 1 Juergen Rose 2019-03-11 09:08:45 UTC 
'USE=-doc emerge -v1 pandas' works.
Comment 2 Virgil Dupras (RETIRED) gentoo-dev 2019-04-27 02:40:35 UTC 
SphinxDocString comes from numpy and I see that numpy's dep constraint on current pandas is not tight enough (it should be >= 1.13.3). It's probably the cause of this problem.
Comment 3 Virgil Dupras (RETIRED) gentoo-dev 2019-04-27 19:15:44 UTC 
It seems that we're in a bad spot concerning building pandas' documentation.

The problem mentioned here, was fixed by the numpydoc bump I've just made to 0.9.1, so there's that. However, a new problem related to ipython's use of sphinx's Directive class makes us unable to proceed.

We need to bump ipython before we can build pandas doc, but ipython 6+ is currently masked. We need to fix this.

Meanwhile, in an upcoming minor bump, I'll disable doc building.
Comment 4 Larry the Git Cow gentoo-dev 2019-04-29 11:59:40 UTC 
The bug has been referenced in the following commit(s):

https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=35cedc38377f3fcdec46f980d8b49408853bc058

commit 35cedc38377f3fcdec46f980d8b49408853bc058
Author:     Virgil Dupras <vdupras@gentoo.org>
AuthorDate: 2019-04-29 11:58:56 +0000
Commit:     Virgil Dupras <vdupras@gentoo.org>
CommitDate: 2019-04-29 11:58:56 +0000

    dev-python/pandas: mask doc USE flag
    
    It is temporarily broken.
    
    Bug: https://bugs.gentoo.org/680014
    Signed-off-by: Virgil Dupras <vdupras@gentoo.org>

 profiles/base/package.use.mask | 4 ++++
 1 file changed, 4 insertions(+)
Comment 5 Michał Górny archtester Gentoo Infrastructure gentoo-dev Security 2021-02-24 20:20:41 UTC 
Closing bugs reported for old versions, no longer in ::gentoo.  Please reopen if you can still reproduce.