Ask quick dev questions about mybinder.org, BinderHub, and repo2docker. Use discourse.jupyter.org for user questions, support, and discussion.
to deploy
so, I was wondering if I have a handle that I can choose where to send ...
Exactly.
Let me grab an example.
So you can go to directly to the google one using http://gke.mybinder.org and make your address using the form there.
Keep in mind this is not to be suggested beyond troubleshooting/workaround terms specifically by you because the operators of MyBinder want to divide up the traffic.
For OVH, just change
gke to ovh.
Whoops. They generalized the form produced now.
I think if you just append the three letters yourself it will work.
If you are experiencing what I saw, you'll see the old build will work but the newer one won't.
Not a 100% solution because if the old build gets erased then you won't get a working launch for now. However, conda may fix things soon and so sometimes you are better off using the one that works for now and waiting. If you want to play around with restoring it working at either place and keep the one that works, I suggest you make a new repo and try things there. That way you hang on to the one that works. For getting the new builds back to working it seems you usually are better off unpinning any versions. Unless unpinned is the one failing now. Then you are better off determining what version works and pinning to that and see if the new build works.
for debugging builds i find it super useful to run https://repo2docker.readthedocs.io/ locally. faster turn around and easier to read logs. The
master version of repo2docker is what runs on all clusters behind mybinder.org
The package causing issue is:
For
simpegEM1D repo, binder is working well, however when I am pip installing simpegEM1D in simpeg-research/kang-2018-AEM I am having error that there is no fortran compiler
ok, you need to install fortran inn your repository as well by listing it in a file called
apt.txt like the original repository does. Take a look at https://repo2docker.readthedocs.io/en/latest/config_files.html#apt-txt-install-packages-with-apt-get for details on that config file and the others supported
https://cloud.google.com/blog/products/serverless/introducing-cloud-run-button-click-to-deploy-your-git-repos-to-google-cloud google has reinvented binder. we should copy the good bits
Anybody there? please help me! urgent! How can I upload local files to jupyter notebook on Binder?
The best way is to add a postBuild file to your repo that uses, e.g., wget to pull the files in https://mybinder.readthedocs.io/en/latest/config_files.html#postbuild-run-code-after-installing-the-environment
@sgibson91 A-ha, thanks! I corrected that, but I am still having some issues. I opened a thread in the Jupyter discourse https://discourse.jupyter.org/t/creating-a-shareable-bokeh-dashboard-with-binder/1962
Dear all, I have a question about binder and R. Specifically, I am trying to fire up this repository (https://github.com/nomcomm/ch2), which uses R. However, the command install.packages("bootnet") produces a non-zero exit - and i am unable to figure out a way to get this particular packages installed. From other machines (locally) I know that there were issues with the g++ compiler, but I am not an expert on that. Any ideas how I could get this working in binder? thank you and best r
I'd run https://repo2docker.readthedocs.io/ locally so the logs are easier to read. See what the error message is and then google about bootnet and what kinds of dependencies it has. repo2docker is the tool that mybinder.org runs to build repos into images
we run
master of repo2docker so i'd install directly from the repository as well to get all the latest updates
""Step 13/66 : RUN adduser --disabled-password --gecos "Default user" --uid ${NB_UID} ${NB_USER}
---> Running in 73e949fd47a1
adduser: Please enter a username matching the regular expression configured
via the NAME_REGEX[_SYSTEM] configuration variable. Use the `--force-badname'
option to relax this check or reconfigure NAME_REGEX. ""
---> Running in 73e949fd47a1
adduser: Please enter a username matching the regular expression configured
via the NAME_REGEX[_SYSTEM] configuration variable. Use the `--force-badname'
option to relax this check or reconfigure NAME_REGEX. ""
thanks, I had done that and found out there can be issues with "Ralf" (my old name), so i changed it to lowercase. I did, however, not properly restart and thus the error stayed. but now with lowercase name and restart, i can run repo2docker locally, which is an advance. i am , however, still digging into dependecies of bootnet, which i don't yet understand. I am listing a ton in the install.R file, but so far i couldn't get to the root of the problem.
and on each lien in n
apt.txt list a package you want to install
a bit annoying that https://cran.r-project.org/web/packages/bootnet/index.html doesn't list what system dependencies you need :-/
if you have a moment could you file an issue in https://github.com/jupyter/repo2docker about your username containing uppercase letters, what operating system you use and the error message you got? then we have a record and someone could start working on fixing it
i tried to work with apt, but I am getting deeper into the dependency-jungle. For instance, a prerequisite of bootnet is networktools, which needs heplots, which needs cars. So i trie to do install.packages("car"), but it tells me that “package ‘car’ is not available (for R version 3.4.4)”, which is curious since I had in the runtime.txt asked for the very latest version ("r-2019-07-05" ), which should be 3.6.5 (according to https://cran.r-project.org/doc/manuals/r-release/NEWS.pdf). So perhaps it could be that somehow repo2docker is installing a wrong R? In the updates during installations, the packages are being loaded from the r-2019-07-05-snapshots on "mran", but I couldn't find the part where the core R gets installted.
runtime.txt for R tells repo2docker which snapshot of MRAN to download the packages from, not the core R version. Unfortunately, it's not yet possible to pin the version of R that's installed 😔 You can follow this issue jupyter/repo2docker#661 on the topic
thank you. that make sense - although it doesn't get the problem solved. Specifically, I've been trying to "install.packages("car")", and i get the response that it isn't available for R3.4.4. Is there any workaround that (the two options being: i) upgrade R to higher version- see link to issue on this ii) make "car" work with 3.4.4. Ideas still welcome .