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Create read_in_cod_assessment_data.R #1

Closed mle2718 closed 3 months ago

mle2718 commented 3 months ago

Code to read in 2025 NAA from stock assessment.

I'll highlight the changes that are needed momentarily.

mle2718 commented 3 months ago

@kimberly-bastille

  1. Directories need to be set to read in from google drive:

https://github.com/mle2718/READ.SSB.groundfishRecDST/blob/07ccf048c72147f8b28e00937fbb5f06a96bae16/R/read_in_cod_assessment_data.R#L63

https://github.com/mle2718/READ.SSB.groundfishRecDST/blob/07ccf048c72147f8b28e00937fbb5f06a96bae16/R/read_in_cod_assessment_data.R#L70

https://github.com/mle2718/READ.SSB.groundfishRecDST/blob/07ccf048c72147f8b28e00937fbb5f06a96bae16/R/read_in_cod_assessment_data.R#L141-L142

https://github.com/mle2718/READ.SSB.groundfishRecDST/blob/07ccf048c72147f8b28e00937fbb5f06a96bae16/R/read_in_cod_assessment_data.R#L242

https://github.com/mle2718/READ.SSB.groundfishRecDST/blob/07ccf048c72147f8b28e00937fbb5f06a96bae16/R/read_in_cod_assessment_data.R#L276

https://github.com/mle2718/READ.SSB.groundfishRecDST/blob/07ccf048c72147f8b28e00937fbb5f06a96bae16/R/read_in_cod_assessment_data.R#L308

mle2718 commented 3 months ago
  1. Need to make sure to install the commit of WHAM that matches the version used to do the assessment

https://github.com/mle2718/READ.SSB.groundfishRecDST/blob/07ccf048c72147f8b28e00937fbb5f06a96bae16/R/read_in_cod_assessment_data.R#L141-L145