After starting jupyter-notebook on my server from the command line, logging into the server works as usual from a browser. After I click on a notebook, it loads and just says "Kernel starting, please wait..." at the top portion. On the server, I see the following, repeating over and over. Googling didn't yield much for me, but I don't really understand how all this goes together. I'll follow with emerge --info. [I 13:29:09.105 NotebookApp] Kernel started: 08163b4a-f92c-40d2-9700-d217f60884b2 ERROR:tornado.general:Uncaught exception in ZMQStream callback Traceback (most recent call last): File "/usr/lib64/python3.6/site-packages/zmq/eventloop/zmqstream.py", line 432, in _run_callback callback(*args, **kwargs) File "/usr/lib64/python3.6/site-packages/tornado/stack_context.py", line 300, in null_wrapper return fn(*args, **kwargs) File "/usr/lib64/python3.6/site-packages/ipykernel/kernelbase.py", line 283, in dispatcher return self.dispatch_shell(stream, msg) File "/usr/lib64/python3.6/site-packages/ipykernel/kernelbase.py", line 233, in dispatch_shell self.pre_handler_hook() File "/usr/lib64/python3.6/site-packages/ipykernel/kernelbase.py", line 248, in pre_handler_hook self.saved_sigint_handler = signal(SIGINT, default_int_handler) File "/usr/lib64/python3.6/signal.py", line 47, in signal handler = _signal.signal(_enum_to_int(signalnum), _enum_to_int(handler)) ValueError: signal only works in main thread ERROR:tornado.general:Uncaught exception in zmqstream callback Traceback (most recent call last): File "/usr/lib64/python3.6/site-packages/zmq/eventloop/zmqstream.py", line 450, in _handle_events self._handle_recv() File "/usr/lib64/python3.6/site-packages/zmq/eventloop/zmqstream.py", line 480, in _handle_recv self._run_callback(callback, msg) File "/usr/lib64/python3.6/site-packages/zmq/eventloop/zmqstream.py", line 432, in _run_callback callback(*args, **kwargs) File "/usr/lib64/python3.6/site-packages/tornado/stack_context.py", line 300, in null_wrapper return fn(*args, **kwargs) File "/usr/lib64/python3.6/site-packages/ipykernel/kernelbase.py", line 283, in dispatcher return self.dispatch_shell(stream, msg) File "/usr/lib64/python3.6/site-packages/ipykernel/kernelbase.py", line 233, in dispatch_shell self.pre_handler_hook() File "/usr/lib64/python3.6/site-packages/ipykernel/kernelbase.py", line 248, in pre_handler_hook self.saved_sigint_handler = signal(SIGINT, default_int_handler) File "/usr/lib64/python3.6/signal.py", line 47, in signal handler = _signal.signal(_enum_to_int(signalnum), _enum_to_int(handler)) ValueError: signal only works in main thread Traceback (most recent call last): File "/usr/lib64/python3.6/runpy.py", line 193, in _run_module_as_main "__main__", mod_spec) File "/usr/lib64/python3.6/runpy.py", line 85, in _run_code exec(code, run_globals) File "/usr/lib64/python3.6/site-packages/ipykernel_launcher.py", line 16, in <module> app.launch_new_instance() File "/usr/lib64/python3.6/site-packages/traitlets/config/application.py", line 658, in launch_instance app.start() File "/usr/lib64/python3.6/site-packages/ipykernel/kernelapp.py", line 477, in start ioloop.IOLoop.instance().start() ERROR:tornado.application:Exception in callback functools.partial(<function wrap.<locals>.null_wrapper at 0x7f5f204ad378>) Traceback (most recent call last): File "/usr/lib64/python3.6/site-packages/tornado/ioloop.py", line 758, in _run_callback ret = callback() File "/usr/lib64/python3.6/site-packages/tornado/stack_context.py", line 300, in null_wrapper return fn(*args, **kwargs) File "/usr/lib64/python3.6/site-packages/zmq/eventloop/zmqstream.py", line 536, in <lambda> self.io_loop.add_callback(lambda : self._handle_events(self.socket, 0)) File "/usr/lib64/python3.6/site-packages/zmq/eventloop/zmqstream.py", line 450, in _handle_events self._handle_recv() File "/usr/lib64/python3.6/site-packages/zmq/eventloop/zmqstream.py", line 480, in _handle_recv self._run_callback(callback, msg) File "/usr/lib64/python3.6/site-packages/zmq/eventloop/zmqstream.py", line 432, in _run_callback callback(*args, **kwargs) File "/usr/lib64/python3.6/site-packages/tornado/stack_context.py", line 300, in null_wrapper return fn(*args, **kwargs) File "/usr/lib64/python3.6/site-packages/ipykernel/kernelbase.py", line 283, in dispatcher return self.dispatch_shell(stream, msg) File "/usr/lib64/python3.6/site-packages/ipykernel/kernelbase.py", line 233, in dispatch_shell self.pre_handler_hook() File "/usr/lib64/python3.6/site-packages/ipykernel/kernelbase.py", line 248, in pre_handler_hook self.saved_sigint_handler = signal(SIGINT, default_int_handler) File "/usr/lib64/python3.6/signal.py", line 47, in signal handler = _signal.signal(_enum_to_int(signalnum), _enum_to_int(handler)) ValueError: signal only works in main thread File "/usr/lib64/python3.6/site-packages/tornado/platform/asyncio.py", line 132, in start self.asyncio_loop.run_forever() File "/usr/lib64/python3.6/asyncio/base_events.py", line 429, in run_forever raise RuntimeError('This event loop is already running') RuntimeError: This event loop is already running [I 13:29:15.084 NotebookApp] KernelRestarter: restarting kernel (1/5), keep random ports Traceback (most recent call last): File "/usr/lib64/python3.6/runpy.py", line 193, in _run_module_as_main "__main__", mod_spec) File "/usr/lib64/python3.6/runpy.py", line 85, in _run_code exec(code, run_globals) File "/usr/lib64/python3.6/site-packages/ipykernel_launcher.py", line 16, in <module> app.launch_new_instance() File "/usr/lib64/python3.6/site-packages/traitlets/config/application.py", line 658, in launch_instance app.start() File "/usr/lib64/python3.6/site-packages/ipykernel/kernelapp.py", line 477, in start ioloop.IOLoop.instance().start() File "/usr/lib64/python3.6/site-packages/tornado/platform/asyncio.py", line 132, in start self.asyncio_loop.run_forever() File "/usr/lib64/python3.6/asyncio/base_events.py", line 429, in run_forever raise RuntimeError('This event loop is already running') RuntimeError: This event loop is already running [I 13:29:21.098 NotebookApp] KernelRestarter: restarting kernel (1/5), keep random ports Reproducible: Always
emerge --info Portage 2.3.89 (python 2.7.17-final-0, default/linux/amd64/17.1, gcc-9.2.0, glibc-2.29-r7, 4.19.97-gentoo x86_64) ================================================================= System uname: Linux-4.19.97-gentoo-x86_64-Intel-R-_Atom-TM-_CPU_D525_@_1.80GHz-with-gentoo-2.6 KiB Mem: 6086456 total, 2891632 free KiB Swap: 0 total, 0 free Timestamp of repository gentoo: Fri, 06 Mar 2020 13:00:01 +0000 Head commit of repository gentoo: 0a1e633fa45a2fc9651e804835732950a0ee97e8 sh bash 4.4_p23-r1 ld GNU ld (Gentoo 2.33.1 p2) 2.33.1 app-shells/bash: 4.4_p23-r1::gentoo dev-lang/perl: 5.30.1::gentoo dev-lang/python: 2.7.17-r1::gentoo, 3.6.10::gentoo, 3.7.6::gentoo dev-util/cmake: 3.14.6::gentoo dev-util/pkgconfig: 0.29.2::gentoo sys-apps/baselayout: 2.6-r1::gentoo sys-apps/openrc: 0.42.1::gentoo sys-apps/sandbox: 2.13::gentoo sys-devel/autoconf: 2.69-r4::gentoo sys-devel/automake: 1.16.1-r1::gentoo sys-devel/binutils: 2.33.1-r1::gentoo sys-devel/gcc: 9.2.0-r2::gentoo sys-devel/gcc-config: 2.2.1::gentoo sys-devel/libtool: 2.4.6-r6::gentoo sys-devel/make: 4.2.1-r4::gentoo sys-kernel/linux-headers: 4.19::gentoo (virtual/os-headers) sys-libs/glibc: 2.29-r7::gentoo Repositories: gentoo location: /usr/portage sync-type: rsync sync-uri: rsync://flogeras/gentoo-portage priority: -1000 sync-rsync-verify-jobs: 1 sync-rsync-verify-metamanifest: no sync-rsync-extra-opts: sync-rsync-verify-max-age: 24 ACCEPT_KEYWORDS="amd64" ACCEPT_LICENSE="@FREE" CBUILD="x86_64-pc-linux-gnu" CFLAGS="-O2 -pipe -march=native" 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/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" CXXFLAGS="-O2 -pipe -march=native" 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 buildpkg 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 qa-unresolved-soname-deps sandbox sfperms strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr" FFLAGS="-O2 -pipe" GENTOO_MIRRORS="http://mirror.its.dal.ca/gentoo" LANG="en_US.utf8" LDFLAGS="-Wl,-O1 -Wl,--as-needed" LINGUAS="en" MAKEOPTS="-j4" 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 bzip2 cli crypt cxx dri fortran gdbm iconv libtirpc multilib ncurses nls nptl openmp pam pcre readline seccomp split-usr ssl tcpd threads unicode xattr zlib" ABI_X86="64" ADA_TARGET="gnat_2018" 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="karbon sheets words" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" CPU_FLAGS_X86="mmx mmxext sse sse2 sse3 ssse3" ELIBC="glibc" GPSD_PROTOCOLS="ashtech aivdm earthmate evermore fv18 garmin garmintxt gpsclock greis 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="keyboard mouse evdev" KERNEL="linux" L10N="en" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php7-2" POSTGRES_TARGETS="postgres10 postgres11" PYTHON_SINGLE_TARGET="python3_6" PYTHON_TARGETS="python2_7 python3_6" RUBY_TARGETS="ruby24 ruby25" USERLAND="GNU" VIDEO_CARDS="intel i915" 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
Recent bump to jupyter + friends seems to have resolved this issue for me.
Thank you David for the report and feedback.
My pleasure, thanks for your hard work!
