Hi Sumana, I’m a big fan of mybinder.org, and the software stack it’s based on (BinderHub and in particular repo2docker).
repo2docker takes a repo with a rather standard & flexible “configuration spec” and builds a Docker image out of it. mybinder.org, which is a free service running software called BinderHub, stage manages the process of getting a GitHub repo name, building the docker image, and then launching one or more containers of that image that run either Jupyter or RStudio (or potentially any other Web site). repo2docker config info: https://repo2docker.readthedocs.io/en/latest/config_files.html mybinder.org: https://mybinder.org/ binderhub: https://github.com/jupyterhub/binderhub There’s a collection of binder examples here, https://github.com/binder-examples and I would suggest taking a look at either https://github.com/binder-examples/jupyterlab or https://github.com/binder-examples/r - just go click the little “launch binder” button on the README! All open source etc etc of course. best, —titus > On Aug 1, 2018, at 9:39 PM, Sumana Harihareswara <[email protected]> wrote: > > Friends and neighbors: what platforms for reproducible science (including > scientific computing) do you recommend? As in, "in order for you to verify my > results, you can go to this webpage/repository/etc. and download the data I > used and the code I wrote, and run the same models/experiments to verify and > reproduce my findings"? And is there an existing platform and site that > economists in particular gravitate toward, and does it make a difference if > the language in question is Python? > > I'm helping a client who wants to avoid reinventing the wheel. I include a > note about them & their current approach at the bottom of this email. > > There seem to be many different software projects and archives I should > explore, such as: > > * LabTrove > http://www.labtrove.org/aboutus/ (example: http://malaria.ourexperiment.org/ > ) > * Dryad > https://datadryad.org/ > > * Open Science Framework > https://osf.io/ > > * figshare > https://figshare.com/ > > * RunMyCode > http://www.runmycode.org/ > > * DAT > https://datproject.org/ > > * finding a particular existing Dataverse or VisTrails instance? > https://dataverse.org/ https://nyu.reproduciblescience.org/vistrails/ > > * ScienceFair > http://sciencefair-app.com/ > maybe? > * Stencila > https://stenci.la/ > maybe? > * use GitHub plus Jupyter notebooks or something like ReproZip > https://www.reprozip.org/ > > > > Sorry if I'm lumping together things that are quite different from each > other! I'm at a bit of a loss here and may have missed a foundational > explanation/directory. > > My client's currently got a standalone GitHub repository: > https://github.com/econ-ark/REMARK > . I'll excerpt from their README to explain: > > > >> This is the resting place for self-contained and complete projects written >> using [our tools]. >> >> Each of these resides in its own subdirectory in the REMARKs directory >> >> Types of content include (see below for elaboration): >> >> Explorations >> Use the Econ-ARK/HARK toolkit to demonstrate some set of modeling >> ideas >> Replications >> Attempts to replicate the results of published papers written using >> other tools >> Reproductions >> Code that reproduces the results of some paper that was originally >> written using the toolkit >> >> > ... > > >> Code archives should contain: >> >> All information required to get the replication code to run >> An indication of how long that takes on some particular machine >> >> Jupyter notebook(s) should: >> >> Explain their own content ("This notebook uses the associated >> replication archive to demonstrate three central results from the paper of >> [original author]: The consumption function and the distribution of wealth") >> Be usable for someone wanting to explore the replication interactively >> (so, no cell should take more than a minute or two to execute on a laptop) >> >> > > Much thanks. I would be happy to hear, for instance, "use this" or "it > depends very heavily on your needs, but DON'T use these because they're > vaporware/super-buggy". > > > > -- > Sumana Harihareswara > Changeset Consulting > > https://changeset.nyc > > > P.S. Tried to send this earlier and it didn't seem to post, so, sorry if this > double-posts. > The Carpentries / discuss / see discussions + participants + delivery options > Permalink ------------------------------------------ The Carpentries: discuss Permalink: https://carpentries.topicbox.com/groups/discuss/T45d1f9e935d7181b-M1da834a8946c3647d96481fc Delivery options: https://carpentries.topicbox.com/groups/discuss/subscription
