Is `nb_conda` broken?

[drorata]

I freshly installed Anaconda and next also nb_conda. However, when starting Jupyter, I don't see the Conda nor, nor a list of the available environments (as kernels).

The steps I took are:

bash ~/Download/Anaconda3-4.4.0-MacOSX-x86_64.sh
conda update --all
conda install nb_conda
conda create --name foo python=3 jupyter

Next I started Jupyter either from the root environment or from foo. In both cases, I couldn't see the list of available environments. I am not sure whether it makes sense or not, I also tried: jupyter nbextension enable nb_conda --user but it yielded:

Enabling notebook extension nb_conda...
      - Validating: problems found:
        - require?  X nb_conda

For reference, here is the output of conda list (from the root env):

_license                  1.1                      py36_1
_nb_ext_conf              0.4.0                    py36_0
alabaster                 0.7.10                   py36_0
anaconda                  4.4.0               np112py36_0
anaconda-client           1.6.3                    py36_0
anaconda-navigator        1.6.2                    py36_0
anaconda-project          0.6.0                    py36_0
appnope                   0.1.0                    py36_0
appscript                 1.0.1                    py36_0
asn1crypto                0.22.0                   py36_0
astroid                   1.4.9                    py36_0
astropy                   1.3.2               np112py36_0
babel                     2.4.0                    py36_0
backports                 1.0                      py36_0
beautifulsoup4            4.6.0                    py36_0
bitarray                  0.8.1                    py36_0
blaze                     0.10.1                   py36_0
bleach                    1.5.0                    py36_0
bokeh                     0.12.5                   py36_1
boto                      2.46.1                   py36_0
bottleneck                1.2.1               np112py36_0
cffi                      1.10.0                   py36_0
chardet                   3.0.3                    py36_0
click                     6.7                      py36_0
cloudpickle               0.2.2                    py36_0
clyent                    1.2.2                    py36_0
colorama                  0.3.9                    py36_0
conda                     4.3.22                   py36_0
conda-env                 2.6.0                         0
contextlib2               0.5.5                    py36_0
cryptography              1.8.1                    py36_0
curl                      7.52.1                        0
cycler                    0.10.0                   py36_0
cython                    0.25.2                   py36_0
cytoolz                   0.8.2                    py36_0
dask                      0.14.3                   py36_1
datashape                 0.5.4                    py36_0
decorator                 4.0.11                   py36_0
distributed               1.16.3                   py36_0
docutils                  0.13.1                   py36_0
entrypoints               0.2.2                    py36_1
et_xmlfile                1.0.1                    py36_0
fastcache                 1.0.2                    py36_1
flask                     0.12.2                   py36_0
flask-cors                3.0.2                    py36_0
freetype                  2.5.5                         2
get_terminal_size         1.0.0                    py36_0
gevent                    1.2.1                    py36_0
greenlet                  0.4.12                   py36_0
h5py                      2.7.0               np112py36_0
hdf5                      1.8.17                        1
heapdict                  1.0.0                    py36_1
html5lib                  0.999                    py36_0
icu                       54.1                          0
idna                      2.5                      py36_0
imagesize                 0.7.1                    py36_0
ipykernel                 4.6.1                    py36_0
ipython                   5.3.0                    py36_0
ipython_genutils          0.2.0                    py36_0
ipywidgets                6.0.0                    py36_0
isort                     4.2.5                    py36_0
itsdangerous              0.24                     py36_0
jbig                      2.1                           0
jdcal                     1.3                      py36_0
jedi                      0.10.2                   py36_2
jinja2                    2.9.6                    py36_0
jpeg                      9b                            0
jsonschema                2.6.0                    py36_0
jupyter                   1.0.0                    py36_3
jupyter_client            5.0.1                    py36_0
jupyter_console           5.1.0                    py36_0
jupyter_core              4.3.0                    py36_0
lazy-object-proxy         1.2.2                    py36_0
libiconv                  1.14                          0
libpng                    1.6.27                        0
libtiff                   4.0.6                         3
libxml2                   2.9.4                         0
libxslt                   1.1.29                        0
llvmlite                  0.18.0                   py36_0
locket                    0.2.0                    py36_1
lxml                      3.7.3                    py36_0
markupsafe                0.23                     py36_2
matplotlib                2.0.2               np112py36_0
mistune                   0.7.4                    py36_0
mkl                       2017.0.1                      0
mkl-service               1.1.2                    py36_3
mpmath                    0.19                     py36_1
msgpack-python            0.4.8                    py36_0
multipledispatch          0.4.9                    py36_0
navigator-updater         0.1.0                    py36_0
nb_anacondacloud          1.4.0                    py36_0
nb_conda                  2.2.0                    py36_0
nb_conda_kernels          2.1.0                    py36_0
nbconvert                 5.1.1                    py36_0
nbformat                  4.3.0                    py36_0
nbpresent                 3.0.2                    py36_0
networkx                  1.11                     py36_0
nltk                      3.2.3                    py36_0
nose                      1.3.7                    py36_1
notebook                  5.0.0                    py36_0
numba                     0.33.0              np112py36_0
numexpr                   2.6.2               np112py36_0
numpy                     1.12.1                   py36_0
numpydoc                  0.6.0                    py36_0
odo                       0.5.0                    py36_1
olefile                   0.44                     py36_0
openpyxl                  2.4.7                    py36_0
openssl                   1.0.2l                        0
packaging                 16.8                     py36_0
pandas                    0.20.1              np112py36_0
pandocfilters             1.4.1                    py36_0
partd                     0.3.8                    py36_0
path.py                   10.3.1                   py36_0
pathlib2                  2.2.1                    py36_0
patsy                     0.4.1                    py36_0
pep8                      1.7.0                    py36_0
pexpect                   4.2.1                    py36_0
pickleshare               0.7.4                    py36_0
pillow                    4.1.1                    py36_0
pip                       9.0.1                    py36_1
ply                       3.10                     py36_0
prompt_toolkit            1.0.14                   py36_0
psutil                    5.2.2                    py36_0
ptyprocess                0.5.1                    py36_0
py                        1.4.33                   py36_0
pycosat                   0.6.2                    py36_0
pycparser                 2.17                     py36_0
pycrypto                  2.6.1                    py36_6
pycurl                    7.43.0                   py36_2
pyflakes                  1.5.0                    py36_0
pygments                  2.2.0                    py36_0
pylint                    1.6.4                    py36_1
pyodbc                    4.0.16                   py36_0
pyopenssl                 17.0.0                   py36_0
pyparsing                 2.1.4                    py36_0
pyqt                      5.6.0                    py36_1
pytables                  3.3.0               np112py36_0
pytest                    3.0.7                    py36_0
python                    3.6.1                         2
python-dateutil           2.6.0                    py36_0
python.app                1.2                      py36_4
pytz                      2017.2                   py36_0
pywavelets                0.5.2               np112py36_0
pyyaml                    3.12                     py36_0
pyzmq                     16.0.2                   py36_0
qt                        5.6.2                         2
qtawesome                 0.4.4                    py36_0
qtconsole                 4.3.0                    py36_0
qtpy                      1.2.1                    py36_0
readline                  6.2                           2
requests                  2.14.2                   py36_0
rope                      0.9.4                    py36_1
ruamel_yaml               0.11.14                  py36_1
scikit-image              0.13.0              np112py36_0
scikit-learn              0.18.1              np112py36_1
scipy                     0.19.0              np112py36_0
seaborn                   0.7.1                    py36_0
setuptools                27.2.0                   py36_0
simplegeneric             0.8.1                    py36_1
singledispatch            3.4.0.3                  py36_0
sip                       4.18                     py36_0
six                       1.10.0                   py36_0
snowballstemmer           1.2.1                    py36_0
sortedcollections         0.5.3                    py36_0
sortedcontainers          1.5.7                    py36_0
sphinx                    1.5.6                    py36_0
spyder                    3.1.4                    py36_0
sqlalchemy                1.1.9                    py36_0
sqlite                    3.13.0                        0
statsmodels               0.8.0               np112py36_0
sympy                     1.0                      py36_0
tblib                     1.3.2                    py36_0
terminado                 0.6                      py36_0
testpath                  0.3                      py36_0
tk                        8.5.18                        0
toolz                     0.8.2                    py36_0
tornado                   4.5.1                    py36_0
traitlets                 4.3.2                    py36_0
unicodecsv                0.14.1                   py36_0
unixodbc                  2.3.4                         0
wcwidth                   0.1.7                    py36_0
werkzeug                  0.12.2                   py36_0
wheel                     0.29.0                   py36_0
widgetsnbextension        2.0.0                    py36_0
wrapt                     1.10.10                  py36_0
xlrd                      1.0.0                    py36_0
xlsxwriter                0.9.6                    py36_0
xlwings                   0.10.4                   py36_0
xlwt                      1.2.0                    py36_0
xz                        5.2.2                         1
yaml                      0.1.6                         0
zict                      0.1.2                    py36_0
zlib                      1.2.8                         3

[drorata]

Addition, when installing nb_conda from conda-forge inside foo, the extension functions as expected.

When doing: conda install -c conda-forge nb_conda in the root environment, the following is yielded:

The following NEW packages will be INSTALLED:

    nb_conda:         2.2.0-py36_0  conda-forge
    nb_conda_kernels: 2.1.0-py36_0  conda-forge

The following packages will be SUPERSEDED by a higher-priority channel:

    conda:            4.3.22-py36_0             --> 4.3.21-py36_1 conda-forge
    conda-env:        2.6.0-0                   --> 2.6.0-0       conda-forge

Which is not too bad I guess. Sub-optimal but OK. What do you think?

[damianavila]

Can you try with:

# nb_conda_kernels
$PYTHON -m nb_conda_kernels.install --enable --prefix $PREFIX

# nb_conda
jupyter-nbextension enable nb_conda --py --sys-prefix
jupyter-serverextension enable nb_conda --py --sys-prefix

@Ilan, I can verify the that I have the _nb_ext_conf package installed but not the conf files installed

$ conda list _nb_ext_conf
# packages in environment at /media/data/miniconda3/envs/test:
#
_nb_ext_conf              0.4.0                    py36_0  

And there is not config files for the extensions...

$ jupyter nbextension list
Known nbextensions:
  config dir: /media/data/miniconda3/envs/test/etc/jupyter/nbconfig
    notebook section
      jupyter-js-widgets/extension  enabled 
      - Validating: OK

and

(test) damian-S400CA :: /media/data/devel :: 
$ jupyter serverextension list

cc @csoja

[ilanschnell]

Yes, this is very strange. I can confirm that the new _nb_ext_conf packages do not include any config files. I will investigate the problem and try to fix it.

[ilanschnell]

I fixed the problem, and uploaded new (not empty) _nb_ext_conf packages.

[drorata]

@damianavila I'm sorry, but I didn't understand what further input I can provide.

@ilanschnell Does it mean that now I can install nb_conda from the default channel?

[ilanschnell]

Yes, that's what it means. Please ensure that _nb_ext_cont 0.4.0 build 1 gets installed.

[drorata]

@ilanschnell How can I verify this?

[ilanschnell]

conda list _nb_ext_conf should display:

_nb_ext_conf              0.4.0                    py36_1

where, the 1 at the end is the important part.

[damianavila]

I have verified that upgrading _nb_ext_conf to the latest fixes the issue. Thanks @ilanschnell !

[drorata]

Installation from defaults works as expected. 👍