Create a simple command line client

[cmungall]

This would be useful for ad-hoc exploration. The swagger UI is nice but involves a lot of cut paste.

I am thinking something very simple, no-frills

e.g

kba concept $conceptId

not sure how best to deal with async. The CLI could simply be blocking.

$ kba concept $conceptId
Response: queryId 1234
$ kba ping
Response: last queryId = 1234
No results yet
$ kba ping
Response: last queryId = 1234
One result from foo-beacon
{....}

[RichardBruskiewich]

Lance did start a discussion with me about this. This seems to be a 2 step development activity:

1. Code a clean (python) wrapper library accessing KBA. Such a library would also facilitate Jupyter notebook (hence, workflow integration) of knowledge beacon.s
2. Code a CLI using that library.

[cmungall]

I see you swagger codegenned the main KB API

You could also omit 1, direct coding via the requests library and passing in parameters as dicts is often fine. YMMV

[RichardBruskiewich]

@cmungall yes, @lhannest started working on a generic beacon wrapper here. Lance, where do we sit with that (in this repo's code base)?

[lhannest]

@RichardBruskiewich It's finished and ready for use. Maybe a CLI should be added to it as well? It's pretty easy with the click library.

But yes, I think this is a good idea. I would make the aggregator CLI client blocking, but show a progress bar.

[RichardBruskiewich]

progress bar helpful, like the download kind of progress bars (hard to figure out, though, what to provide as a metric of progress in the software....) Maybe, add an optional "timeout" parameter, in case one wants to abort. Also, time taken for a KBA query is probably a function of page size requested (sometimes, page number too?)

[cmungall]

+1

…

On 9 Nov 2018, at 8:32, Lance Hannestad wrote: @RichardBruskiewich It's finished and ready for use. Maybe a CLI should be added to it as well? It's pretty easy with the [click](https://click.palletsprojects.com/en/7.x/) library. But yes, I think this is a good idea. I would make the aggregator client blocking, but show a progress bar. -- You are receiving this because you were mentioned. Reply to this email directly or view it on GitHub: #86 (comment)

[lhannest]

https://pypi.org/project/kba/

https://github.com/NCATS-Tangerine/beacon-aggregator-client#command-line-interface