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Scripts for getting lists of repositories on OSBv2 and associated databases

These scripts can be used to get a cached list of the current repositories on OSBv2 and v2dev, and also keep them up to date with the contents of DANDI, ModelDB, BioModels etc.

  1. A GitHub access token must be created so scripts using the python github package can be run.

    Save in github.auth locally.

  2. Update current cached lists:

    ./info_all.sh -q # Runs a quick check of contents of OSBv1, OSBv2, OSBv2dev, OSB repos on Github & DANDI Archive.
./info_all.sh    # Same as above, but with BioModles & ModelDB

    Contents will be saved in JSON files in cached_info/

  3. Update an OSBv1 project.

    If there is a new OSBv1 project, which hasn't been added to v2/v2dev, run:

    python loadosbv1.py -v2dev -dry # this do a dry run and print info on which projects/repos it still needs to add

    Get an access token by logging in to v2dev, opening the Web Developer console, loading a page, copying the network access token (e.g. abcxxx123) and using this to add the repo via the api:

    python loadosbv1.py abcxxx123 -v2dev # add new repos

python osb_info.py -v2dev # regenerate cached list of all repos

    Then do the same using -v2 for OSBv2.