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working directory for active analyses.R #56

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ZoeMZou opened this issue Dec 11, 2024 · 2 comments · May be fixed by #43
Closed

working directory for active analyses.R #56

ZoeMZou opened this issue Dec 11, 2024 · 2 comments · May be fixed by #43

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@ZoeMZou
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ZoeMZou commented Dec 11, 2024

Hi @venexia,

I noticed that running the active_analyses.R script locally creates a lib folder under the analyses directory instead of the main repo. To work around this, I’ve been temporarily setting the working directory to my local path (setwd("C:\Users\mz16609\post-covid-respiratory")), running the script to generate the active_analyses dataset, and then removing the setwd code before committing. This approach feels a bit clunky—do you have any suggestions for a smoother solution?

I think you mentioned the specify_path script, but I dont know how to use that for the active_analyses.R script.

Best wishes,
Zoe
@ZoeMZou ZoeMZou linked a pull request Dec 11, 2024 that will close this issue
Dataset definition #40
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@venexia venexia removed a link to a pull request Dec 12, 2024
Dataset definition #40
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@venexia venexia linked a pull request Dec 12, 2024 that will close this issue
Preprocess data #43
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@venexia
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venexia commented Dec 12, 2024

Hi @ZoeMZou. I should have mentioned this before. We usually use R projects. Next time you are in Rstudio, click 'New project' in the top right hand corner. You then want to select 'Existing directory' and navigate to post-covid-respiratory and click 'Create project'. This will create a .Rproj file in the directory that you can commit to GitHub. Anytime you want to work on the project, you can click on this file or use 'Open project' in RStudio and it will start an RStudio session with your path as post-covid-respiratory.

@ZoeMZou
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ZoeMZou commented Dec 12, 2024

Hi @ZoeMZou. I should have mentioned this before. We usually use R projects. Next time you are in Rstudio, click 'New project' in the top right hand corner. You then want to select 'Existing directory' and navigate to post-covid-respiratory and click 'Create project'. This will create a .Rproj file in the directory that you can commit to GitHub. Anytime you want to work on the project, you can click on this file or use 'Open project' in RStudio and it will start an RStudio session with your path as post-covid-respiratory.

Great, thanks Venexia! Have set the project directory in Rstudio.

@ZoeMZou ZoeMZou closed this as completed Dec 12, 2024
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Preprocess data opensafely/post-covid-respiratory
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@venexia @ZoeMZou