Hi,
I´m trying to serve R kernel from my jupyterhub installation, but no
matter what I try, the kernel always die.
My jupyterhub installation is working fine, launching single-server
notebooks for Python2 and Python3.
I´ve installed r-essentials directly from Anaconda3 to avoid any
conflict; no R installed at the system level.
After installation, opened the R console (terminal) and run
IRkernel::installspec(user = FALSE). The kernel appears in Jupyter menu,
together Python entires.
I´m running a CentOS7 server, Jupyterhub running by root (sudo was not
able to authenticate users), behing a nginx reverse proxy.
BTW, how to enable debug information in jupyterhub config?
Bellow is my conda information, and attached my conda --list information.
Appreciate any help.
Mario M.
# conda info
Current conda install:
platform : linux-64
conda version : 4.2.12
conda is private : False
conda-env version : 4.2.12
conda-build version : 2.0.2
python version : 3.5.2.final.0
requests version : 2.11.1
root environment : /srv/anaconda3 (writable)
default environment : /srv/anaconda3
envs directories : /srv/anaconda3/envs
package cache : /srv/anaconda3/pkgs
channel URLs : https://conda.anaconda.org/r/linux-64
https://conda.anaconda.org/r/noarch
https://repo.continuum.io/pkgs/free/linux-64
https://repo.continuum.io/pkgs/free/noarch
https://repo.continuum.io/pkgs/pro/linux-64
https://repo.continuum.io/pkgs/pro/noarch
config file : /root/.condarc
offline mode : False
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# packages in environment at /srv/anaconda3:
#
_license 1.1 py35_1 defaults
_nb_ext_conf 0.3.0 py35_0 defaults
alabaster 0.7.9 py35_0 defaults
anaconda 4.2.0 np111py35_0 defaults
anaconda-clean 1.0.0 py35_0 defaults
anaconda-client 1.5.1 py35_0 defaults
anaconda-navigator 1.3.1 py35_0 defaults
argcomplete 1.0.0 py35_1 defaults
astroid 1.4.7 py35_0 defaults
astropy 1.2.1 np111py35_0 defaults
babel 2.3.4 py35_0 defaults
backports 1.0 py35_0 defaults
beautifulsoup4 4.5.1 py35_0 defaults
bitarray 0.8.1 py35_0 defaults
blaze 0.10.1 py35_0 defaults
bokeh 0.12.2 py35_0 defaults
boto 2.42.0 py35_0 defaults
bottleneck 1.1.0 np111py35_0 defaults
bzip2 1.0.6 3 defaults
cairo 1.12.18 6 defaults
cffi 1.7.0 py35_0 defaults
chest 0.2.3 py35_0 defaults
click 6.6 py35_0 defaults
cloudpickle 0.2.1 py35_0 defaults
clyent 1.2.2 py35_0 defaults
colorama 0.3.7 py35_0 defaults
conda 4.2.12 py35_0 defaults
conda-build 2.0.2 py35_0 defaults
conda-env 2.6.0 0 defaults
configobj 5.0.6 py35_0 defaults
configurable-http-proxy 1.3.0 1 conda-forge
contextlib2 0.5.3 py35_0 defaults
cryptography 1.5 py35_0 defaults
curl 7.49.0 1 defaults
cycler 0.10.0 py35_0 defaults
cython 0.24.1 py35_0 defaults
cytoolz 0.8.0 py35_0 defaults
dask 0.11.0 py35_0 defaults
datashape 0.5.2 py35_0 defaults
dbus 1.10.10 0 defaults
decorator 4.0.10 py35_0 defaults
dill 0.2.5 py35_0 defaults
docutils 0.12 py35_2 defaults
dynd-python 0.7.2 py35_0 defaults
entrypoints 0.2.2 py35_0 defaults
et_xmlfile 1.0.1 py35_0 defaults
expat 2.1.0 0 defaults
fastcache 1.0.2 py35_1 defaults
filelock 2.0.6 py35_0 defaults
flask 0.11.1 py35_0 defaults
flask-cors 2.1.2 py35_0 defaults
fontconfig 2.11.1 6 defaults
freetype 2.5.5 1 defaults
get_terminal_size 1.0.0 py35_0 defaults
gevent 1.1.2 py35_0 defaults
glib 2.43.0 1 defaults
greenlet 0.4.10 py35_0 defaults
gsl 1.16 1 r
gst-plugins-base 1.8.0 0 defaults
gstreamer 1.8.0 0 defaults
h5py 2.6.0 np111py35_2 defaults
harfbuzz 0.9.39 1 defaults
hdf5 1.8.17 1 defaults
heapdict 1.0.0 py35_1 defaults
icu 54.1 0 defaults
idna 2.1 py35_0 defaults
imagesize 0.7.1 py35_0 defaults
ipykernel 4.5.0 py35_0 defaults
ipython 5.1.0 py35_0 defaults
ipython_genutils 0.1.0 py35_0 defaults
ipywidgets 5.2.2 py35_0 defaults
itsdangerous 0.24 py35_0 defaults
jbig 2.1 0 defaults
jdcal 1.2 py35_1 defaults
jedi 0.9.0 py35_1 defaults
jinja2 2.8 py35_1 defaults
jpeg 8d 2 defaults
jsonschema 2.5.1 py35_0 defaults
jupyter 1.0.0 py35_3 defaults
jupyter_client 4.4.0 py35_0 defaults
jupyter_console 5.0.0 py35_0 defaults
jupyter_core 4.2.0 py35_0 defaults
jupyterhub 0.6.1 py35_0 conda-forge
lazy-object-proxy 1.2.1 py35_0 defaults
libdynd 0.7.2 0 defaults
libffi 3.2.1 0 defaults
libgcc 4.8.5 2 defaults
libgfortran 3.0.0 1 defaults
libpng 1.6.22 0 defaults
libsodium 1.0.10 0 defaults
libtiff 4.0.6 2 defaults
libxcb 1.12 0 defaults
libxml2 2.9.2 0 defaults
libxslt 1.1.28 0 defaults
llvmlite 0.13.0 py35_0 defaults
locket 0.2.0 py35_1 defaults
lxml 3.6.4 py35_0 defaults
markupsafe 0.23 py35_2 defaults
matplotlib 1.5.3 np111py35_0 defaults
mistune 0.7.3 py35_0 defaults
mkl 11.3.3 0 defaults
mkl-service 1.1.2 py35_2 defaults
mpmath 0.19 py35_1 defaults
multipledispatch 0.4.8 py35_0 defaults
nb_anacondacloud 1.2.0 py35_0 defaults
nb_conda 2.0.0 py35_0 defaults
nb_conda_kernels 2.0.0 py35_0 defaults
nbconvert 4.2.0 py35_0 defaults
nbformat 4.1.0 py35_0 defaults
nbpresent 3.0.2 py35_0 defaults
ncurses 5.9 8 defaults
networkx 1.11 py35_0 defaults
nltk 3.2.1 py35_0 defaults
nodejs 4.5.0 0 conda-forge
nose 1.3.7 py35_1 defaults
notebook 4.2.3 py35_0 defaults
numba 0.28.1 np111py35_0 defaults
numexpr 2.6.1 np111py35_0 defaults
numpy 1.11.1 py35_0 defaults
odo 0.5.0 py35_1 defaults
openpyxl 2.3.2 py35_0 defaults
openssl 1.0.2j 0 defaults
pamela 0.2.1 py35_1 conda-forge
pandas 0.18.1 np111py35_0 defaults
pango 1.39.0 1 defaults
partd 0.3.6 py35_0 defaults
patchelf 0.9 0 defaults
path.py 8.2.1 py35_0 defaults
pathlib2 2.1.0 py35_0 defaults
patsy 0.4.1 py35_0 defaults
pcre 8.39 0 defaults
pep8 1.7.0 py35_0 defaults
pexpect 4.0.1 py35_0 defaults
pickleshare 0.7.4 py35_0 defaults
pillow 3.3.1 py35_0 defaults
pip 8.1.2 py35_0 defaults
pixman 0.32.6 0 defaults
pkginfo 1.3.2 py35_0 defaults
ply 3.9 py35_0 defaults
prompt_toolkit 1.0.3 py35_0 defaults
psutil 4.3.1 py35_0 defaults
ptyprocess 0.5.1 py35_0 defaults
py 1.4.31 py35_0 defaults
pyasn1 0.1.9 py35_0 defaults
pycosat 0.6.1 py35_1 defaults
pycparser 2.14 py35_1 defaults
pycrypto 2.6.1 py35_4 defaults
pycurl 7.43.0 py35_0 defaults
pyflakes 1.3.0 py35_0 defaults
pygments 2.1.3 py35_0 defaults
pylint 1.5.4 py35_1 defaults
pyopenssl 16.0.0 py35_0 defaults
pyparsing 2.1.4 py35_0 defaults
pyqt 5.6.0 py35_0 defaults
pytables 3.2.3.1 np111py35_0 defaults
pytest 2.9.2 py35_0 defaults
python 3.5.2 0 defaults
python-dateutil 2.5.3 py35_0 defaults
pytz 2016.6.1 py35_0 defaults
pyyaml 3.12 py35_0 defaults
pyzmq 15.4.0 py35_0 defaults
qt 5.6.0 0 defaults
qtawesome 0.3.3 py35_0 defaults
qtconsole 4.2.1 py35_1 defaults
qtpy 1.1.2 py35_0 defaults
r 3.3.1 r3.3.1_0 r
r-assertthat 0.1 r3.3.1_4 r
r-base 3.3.1 5 r
r-base64enc 0.1_3 r3.3.1_0 r
r-bh 1.60.0_2 r3.3.1_0 r
r-bitops 1.0_6 r3.3.1_2 r
r-boot 1.3_18 r3.3.1_0 r
r-car 2.1_2 r3.3.1_0 r
r-caret 6.0_70 r3.3.1_0 r
r-catools 1.17.1 1a r
r-chron 2.3_47 r3.3.1_0 r
r-class 7.3_14 r3.3.1_0 r
r-cluster 2.0.4 r3.3.1_0 r
r-codetools 0.2_14 r3.3.1_0 r
r-colorspace 1.2_6 r3.3.1_0 r
r-crayon 1.3.1 r3.3.1_0 r
r-curl 0.9.7 r3.3.1_0 r
r-data.table 1.9.6 r3.3.1_0 r
r-dbi 0.4_1 r3.3.1_0 r
r-dichromat 2.0_0 r3.3.1_2 r
r-digest 0.6.9 r3.3.1_0 r
r-dplyr 0.4.3 r3.3.1_0 r
r-essentials 1.4.3 r3.3.1_0 r
r-evaluate 0.9 r3.3.1_0 r
r-foreach 1.4.3 r3.3.1_0 r
r-foreign 0.8_66 r3.3.1_0 r
r-formatr 1.4 r3.3.1_0 r
r-ggplot2 2.1.0 r3.3.1_0 r
r-gistr 0.3.6 r3.3.1_0 r
r-glmnet 2.0_5 r3.3.1_0 r
r-gtable 0.2.0 r3.3.1_0 r
r-hexbin 1.27.1 r3.3.1_0 r
r-highr 0.6 r3.3.1_0 r
r-htmltools 0.3.5 r3.3.1_0 r
r-htmlwidgets 0.6 r3.3.1_0 r
r-httpuv 1.3.3 r3.3.1_0 r
r-httr 1.2.0 r3.3.1_0 r
r-irdisplay 0.4.3 r3.3.1_2 r
r-irkernel 0.7 r3.3.1_2 r
r-iterators 1.0.8 r3.3.1_0 r
r-jsonlite 0.9.22 r3.3.1_0 r
r-kernsmooth 2.23_15 r3.3.1_0 r
r-knitr 1.13 r3.3.1_0 r
r-labeling 0.3 r3.3.1_2 r
r-lattice 0.20_33 r3.3.1_0 r
r-lazyeval 0.2.0 r3.3.1_0 r
r-lme4 1.1_12 r3.3.1_0 r
r-magrittr 1.5 r3.3.1_2 r
r-maps 3.1.0 r3.3.1_0 r
r-markdown 0.7.7 r3.3.1_2 r
r-mass 7.3_45 r3.3.1_0 r
r-matrix 1.2_6 r3.3.1_0 r
r-matrixmodels 0.4_1 r3.3.1_0 r
r-memoise 1.0.0 r3.3.1_0 r
r-mgcv 1.8_12 r3.3.1_0 r
r-mime 0.4 r3.3.1_0 r
r-minqa 1.2.4 r3.3.1_2 r
r-munsell 0.4.3 r3.3.1_0 r
r-nlme 3.1_128 r3.3.1_0 r
r-nloptr 1.0.4 r3.3.1_2 r
r-nnet 7.3_12 r3.3.1_0 r
r-openssl 0.9.4 r3.3.1_0 r
r-pbdzmq 0.2_3 r3.3.1_0 r
r-pbkrtest 0.4_6 r3.3.1_0 r
r-plyr 1.8.4 r3.3.1_0 r
r-pryr 0.1.2 r3.3.1_0 r
r-quantmod 0.4_5 r3.3.1_2 r
r-quantreg 5.26 r3.3.1_0 r
r-r6 2.1.2 r3.3.1_0 r
r-randomforest 4.6_12 r3.3.1_0 r
r-rbokeh 0.4.2 r3.3.1_0 r
r-rcolorbrewer 1.1_2 r3.3.1_3 r
r-rcpp 0.12.5 r3.3.1_0 r
r-rcppeigen 0.3.2.8.1 r3.3.1_0 r
r-recommended 3.3.1 r3.3.1_0 r
r-repr 0.7 r3.3.1_0 r
r-reshape2 1.4.1 r3.3.1_2 r
r-rmarkdown 0.9.6 r3.3.1_0 r
r-rpart 4.1_10 r3.3.1_0 r
r-scales 0.4.0 r3.3.1_0 r
r-shiny 0.13.2 r3.3.1_0 r
r-sparsem 1.7 r3.3.1_0 r
r-spatial 7.3_11 r3.3.1_0 r
r-stringi 1.1.1 r3.3.1_0 r
r-stringr 1.0.0 r3.3.1_0 r
r-survival 2.39_4 r3.3.1_0 r
r-tibble 1.0 r3.3.1_0 r
r-tidyr 0.5.1 r3.3.1_0 r
r-ttr 0.23_1 r3.3.1_0 r
r-uuid 0.1_2 r3.3.1_0 r
r-xtable 1.8_2 r3.3.1_0 r
r-xts 0.9_7 r3.3.1_2 r
r-yaml 2.1.13 r3.3.1_2 r
r-zoo 1.7_13 r3.3.1_0 r
readline 6.2 2 defaults
redis 3.2.0 0 defaults
redis-py 2.10.5 py35_0 defaults
requests 2.11.1 py35_0 defaults
rope 0.9.4 py35_1 defaults
ruamel_yaml 0.11.14 py35_0 defaults
scikit-image 0.12.3 np111py35_1 defaults
scikit-learn 0.17.1 np111py35_2 defaults
scipy 0.18.1 np111py35_0 defaults
setuptools 27.2.0 py35_0 defaults
simplegeneric 0.8.1 py35_1 defaults
singledispatch 3.4.0.3 py35_0 defaults
sip 4.18 py35_0 defaults
six 1.10.0 py35_0 defaults
snowballstemmer 1.2.1 py35_0 defaults
sockjs-tornado 1.0.3 py35_0 defaults
sphinx 1.4.6 py35_0 defaults
spyder 3.0.0 py35_0 defaults
sqlalchemy 1.0.13 py35_0 defaults
sqlite 3.13.0 0 defaults
statsmodels 0.6.1 np111py35_1 defaults
sympy 1.0 py35_0 defaults
terminado 0.6 py35_0 defaults
tk 8.5.18 0 defaults
toolz 0.8.0 py35_0 defaults
tornado 4.4.1 py35_0 defaults
traitlets 4.3.0 py35_0 defaults
unicodecsv 0.14.1 py35_0 defaults
wcwidth 0.1.7 py35_0 defaults
werkzeug 0.11.11 py35_0 defaults
wheel 0.29.0 py35_0 defaults
widgetsnbextension 1.2.6 py35_0 defaults
wrapt 1.10.6 py35_0 defaults
xlrd 1.0.0 py35_0 defaults
xlsxwriter 0.9.3 py35_0 defaults
xlwt 1.1.2 py35_0 defaults
xz 5.2.2 0 defaults
yaml 0.1.6 0 defaults
zeromq 4.1.4 0 defaults
zlib 1.2.8 3 defaults
