Converting sccomp from rstan to Python - paid work + addendum authorsphip on the paper

Jobs
, ,
1

Hello All,

I would like to convert sccomp

from rstan to pystan, to produce a python package.

I have some funds to support a contractor position. Plus, a authorship addendum for the current paper will be requested to PNAS journal.

Please spread the word if you know someone interested. It should be a pretty straighforward task.

Thanks!

2

have you considered using CmdStanPy instead of pystan?

cf: CmdStanPy 1.0 - #3 by WardBrian

3

For R, after have implemented both versions rstan and cmdstanr, I opted for rstan because it’s a bit too combersome develop packages with cmdstanr.

I through that it would be the same for pystan cmdstanpy, but I would be ok with both, if a user-friendly python package can be developed.

I have edited the title of the post.

4

Hi Stefano,

I’m definitely interested, could you message me with some more details on what exactly you’d like to do and your timelines?

Best,
Kiran

5

I have had great luck using ChatGPT (4, not 3.5) to convert R code to Python code for me.

I don’t think there’s any packaging we have in Python with PyStan that’ll let you generate a binary package the way you can with the tools based on RStan. Hopefully @ariddell will correct me if I’m wrong about that.

I do everything in CmdStanPy now. It’s on PyPI so you can write other packages that depend on it fairly easily. But, a user is still going to need a C++ toolchain to make it run.

@mitzimorris: CmdStanR is not on CRAN, so you couldn’t write a package that depended on CmdStanR.

6

@WardBrian has built conda-forge installers for both Cmdstan :: Anaconda.org and Cmdstanpy :: Anaconda.org which will install a C++ toolchain for Windows, Linux, and Macs.

7

I don’t know of any for PyStan. For CmdStanPy, I have developed GitHub - WardBrian/cookiecutter-cmdstanpy-wrapper: Easily wrap a Stan model in a Python package

This is based on the work I did with the Facebook Prophet team to streamline their install process in Python. They had previously used PyStan, but lack of windows support pushed them off of it

8

D’oh. Of course. When I asked @mitzimorris she mentioned you had something like this. And I think you mentioned it to me when you were working on the prophet refactor.

Is there a reason it’s on your GitHub and not on stan-dev?

Could someone do the same thing for CmdStanR? If so, that may be an easier to maintain solution than RStan.

9

I wouldn’t mind if it was moved to stan-dev. It was just easier to do on my own, and avoided any question of if the project-at-large would sign off on the solution it presents. We do link to it from the cmdstanpy docs

I don’t know nearly as much about the state of R binary packaging, but I expect it would be possible

10

and would someone be willing to go the extra distance and put cookie-cutter cmdstanpy 4 R on CRAN?
“on CRAN” is seen as:
a) a good distribution channel
b) a version control mechanism

we need an R developer who’s willing to deal with C antankerous R ipley, A rrogant N uisance – any volunteers? (thanks to ChatGPT for decoding the acronym).

regarding reason a - why hasn’t the R community moved to R Universe?

11

Hi Stefano,
If you are still on the lookout for someone, I would be intrested as what you are wanting done is within my skillset
You can reach out to me on my email here
Colin

12

Thanks @Colin and @kiran I will be in contact soon. I will be able to spend from March, but I can contact you soon to talk more.

13

I reopen this opportunity. Please le me know if anyone is interested.

Thanks!