by

Where communities thrive


  • Join over 1.5M+ people
  • Join over 100K+ communities
  • Free without limits
  • Create your own community
People
Activity
  • Jun 05 05:06
    LemingVan closed #779
  • Jun 05 05:06
    LemingVan commented #779
  • Jun 04 18:29
    rabernat commented #779
  • Jun 04 11:33
    TomAugspurger commented #773
  • Jun 04 11:19
    Boes-man commented #773
  • Jun 04 07:38
    LemingVan opened #779
  • Jun 03 18:19
    scottyhq commented #773
  • Jun 03 15:14
    TomAugspurger commented #773
  • Jun 02 23:57
    Boes-man commented #773
  • Jun 02 19:25
    stale[bot] labeled #757
  • Jun 02 19:25
    stale[bot] commented #757
  • Jun 02 13:10
    TomAugspurger commented #773
  • Jun 02 03:15
    Boes-man commented #773
  • May 30 02:33
    stale[bot] closed #769
  • May 30 02:33
    stale[bot] commented #769
  • May 28 17:48
    bradyrx commented #764
  • May 25 01:23
    dgergel commented #778
  • May 25 01:22
    dgergel commented #778
  • May 25 01:20
    dgergel commented #778
  • May 23 19:52
    stale[bot] unlabeled #764
Scott
@scollis
Thanks @eddienko
@TomAugspurger Blank with a tab with the dask logo and the name, eg “Dask Task Stream”
Opening new panels does not help
This happens on your pangeo-notebooks example and my own “roll your own"
And @TomAugspurger I am running the examples in the pangeo-example-notebook repo
Tested now on Chrome and Safari
Jim Crist-Harif
@jcrist
@scollis , I've seen this behavior with tornado 6 and jupyter-server-proxy (the proxy used to proxy the dashboard through the user's notebook session). In the user's notebook environment, you need tornado 5 installed.
Scott
@scollis
Thanks.. will play with the environment.yml file
Joe Hamman
@jhamman
@rabernat, @rsignell-usgs, @tjcrone - can I merge this: pangeo-data/pangeo-cloud-federation#362
Scott Henderson
@scottyhq
@jhamman - just left a comment
Scott Henderson
@scottyhq
@fmaussion - we aren't updating images on any fixed timeline. But separating ‘staging’ and ‘production’ hubs has been useful to test things out and minimize disruption (see https://github.com/pangeo-data/pangeo-cloud-federation). As you already noted, the user home directory is unaffected. We’ve hit a lot of snags over the last months w/ version compatibilty when trying to have the latest packages (e.g. jupyterlab1, dask + dask-labextension). see https://github.com/pangeo-data/pangeo-stacks.
Joe Hamman
@jhamman
@mrocklin - if you’re around, let’s get you sorted on Cheyenne.
Scott
@scollis
Hey @scottyhq Thanks for the idea of using the base docker container.. I will give that a go…. Still lots to learn for me!
Scott
@scollis
All this stuff is very dfferent to your quickstarts.. if you want, once the dust settles from my learning I can put some PRs together with some new quickstarts including updating the cookie cutter
Scott Henderson
@scottyhq
no problem @scollis! thanks for trying things out. PRs are more than welcome. especially w/ documentation. it’s a bit of a moving target right now as we’re constantly experimenting with things so it's hard to keep current.
Scott
@scollis
so the base docker.. does that have the dask and jupyterlab set ups? so no need to include that anymore in the binder dir environment.yml
ie the environment.yml should now only have domain specific packages?
Scott Henderson
@scottyhq
that’s the idea yes. because we’re using repo2docker you end up layering packages that are defined in the following places in order 1) https://github.com/jupyter/repo2docker/blob/master/repo2docker/buildpacks/conda/environment.yml 2) https://github.com/pangeo-data/pangeo-stacks/blob/master/base-notebook/binder/environment.yml and 3) your own environment.yml.
if you want different versions of these base packages, including those versions in your environment.yml should overwrite them
Scott
@scollis
Great
Scott Henderson
@scottyhq
https://github.com/scottyhq/pangeo-binder-test/tree/esip-tech-dive is a working current example (although I don’t automatically run the notebook to check for errors)
in the binder folder this line in Dockerfile is key FROM pangeo/base-notebook-onbuild:2019.08.08 . It fetches the dated image form https://github.com/pangeo-data/pangeo-stacks and then runs your environment.yml, postBuild, etc on top
Joe Hamman
@jhamman
@scottyhq - I think we’re good with pangeo-data/pangeo-cloud-federation#362. Please take a look around staging.hub.pangeo.io to see if you spot anything out of place.
Scott
@scollis
Thanks @scottyhq .. trying now. This is very nice
Scott
@scollis
@scottyhq assume it is the same for postBuild and other stuff in /binder/*
Scott Henderson
@scottyhq
that’s right. except unfortunately I don’t think we enabled the ‘start’ script.
Scott
@scollis
@scottyhq up and running nicely.. some issues with the dask integration into the jupyterlab panel space but stuff I can debug and iron our..
Radar Pangeo here we come!
Scott Henderson
@scottyhq
awesome! great news
Joe Hamman
@jhamman
@scottyhq - ideas on this error/warning from conda:
The following packages are causing the inconsistency:

  - conda-forge/linux-64::notebook==6.0.0=py37_0
  - conda-forge/linux-64::ipyleaflet==0.11.1=py37_1
  - conda-forge/noarch::geoviews==1.6.2=py_0
  - conda-forge/linux-64::widgetsnbextension==3.5.1=py37_0
  - conda-forge/noarch::ipywidgets==7.5.1=py_0
  - conda-forge/noarch::jupyter==1.0.0=py_2
  - conda-forge/noarch::nbconvert==5.5.0=py_0
  - conda-forge/noarch::hvplot==0.4.0=py_1
  - conda-forge/noarch::geoviews-core==1.6.2=py_0
  - conda-forge/noarch::nbgitpuller==0.7.0=py_0
  - conda-forge/linux-64::jupyterlab==1.0.4=py37_0
  - conda-forge/noarch::jupyter-server-proxy==1.1.0=py_0
  - conda-forge/noarch::jupyterlab_server==1.0.0=py_1
Matthew Rocklin
@mrocklin
@jhamman ah, sorry, I was on a flight
I'm also currently away from a full-sized USB port, maybe tomorrow though?
Joe Hamman
@jhamman
Yeah, sounds good. You’ll find me here tomorrow as well. :airplane:
Pier
@PhenoloBoy
@jhamman is it you that I've to contact to get the git-crypt symmetric key as described here? https://github.com/pangeo-data/pangeo-cloud-federation
Scott
@scollis
@jhamman is there a publication I can cite for Pangeo?
Joe Hamman
@jhamman
@scollis - nothing comprehensive just yet. However, we did publish the NSF proposal (https://figshare.com/articles/Pangeo_NSF_Earthcube_Proposal/5361094) and @guillaumeeb had this conference paper published:
Eynard-Bontemps, G., R Abernathey, J. Hamman, A. Ponte, W. Rath, 2019: The Pangeo Big Data Ecosystem and its use at CNES. In P. Soille, S. Loekken, and S. Albani, Proc. of the 2019 conference on Big Data from Space (BiDS’2019), 49-52. EUR 29660 EN, Publications Office of the European Union, Luxembourg. ISBN: 978-92-76-00034-1, doi:10.2760/848593.
@PhenoloBoy - we’re trying not to share the git-crypt key unless absolutely necessary. Can I ask what you are up to?
Scott
@scollis
Perfect. Thanks… This would be perfect for something like AMS BAMS or suchlike or even a glossy like Science..
Joe Hamman
@jhamman
We’re…trying...
We actually have something in review with Nature but things seem to have stalled out in a big way.
This is on my list of things to deal with today.
Matthew Rocklin
@mrocklin
@jhamman I'm around. I've submitted a job and am going to wait a while to see if it clears
Joe Hamman
@jhamman
cheyenne is down right now so you’ll need to be on casper.
Matthew Rocklin
@mrocklin
Well that's good to know :)
Joe Hamman
@jhamman
do we have a working slurm cluster right now?
https://jupyterhub.ucar.edu/dav will put you on casper (which uses slurm)
Matthew Rocklin
@mrocklin
I'm ssh'ing in