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USM-CHU-FGuyon / BlendedICU

OMOP standardization pipeline for ICU databases
MIT License
26 stars 9 forks source link

Missing env.yml Runtime Environment Configuration File #5

Closed CabinH closed 11 months ago

CabinH commented 11 months ago

I've been following your project on GitHub, and in the readme.md file, it mentions the presence of an env.yml runtime environment configuration file. However, I couldn't locate this file anywhere within the entire project. I'm hoping to use this file to correctly configure the project's runtime environment. Is it possible to provide some assistance or guidance, or could you please check if there's a location I might have overlooked?

I expected the env.yml file to be in the project's root directory or at the location mentioned in the readme.md. If it's located in a specific subdirectory of the project or follows a particular naming convention, please provide detailed information so that I can locate it.

Thank you very much for your assistance, and I'm looking forward to successfully configuring the project's runtime environment! If there's any additional information or guidance, please do let me know.

USM-CHU-FGuyon commented 11 months ago

Thank you for filing an issue, the env.yml is indeed missing... I can't check the exact file right now but this should be ok : 

channels:
  - conda-forge
  - defaults
dependencies:
  - numpy=1.23.1
  - pandas=1.4.3
  - pyarrow=8.0.0
  - seaborn=0.11.2
  - matplotlib=3.5.3
  - natsort=8.2.0

I will upload the exact env.yml file to the repo in the first week of november, but this should help you getting started.

Please tell me if you encounter more issues

USM-CHU-FGuyon commented 11 months ago

The env.yml was added in release v0.1.0. Pandas version was bumped to v2.1 and seaborn to v0.13