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aclim_00_JunV2_2019_2.zipEBM Holsman Bering Sea climate change files
Version 3 2020-02-18, 08:27
Version 2 2020-02-18, 08:24
Version 1 2020-02-18, 08:23
dataset
posted on 2020-02-18, 08:23 authored by Kirstin HolsmanKirstin HolsmanMultispecies Assessment model runs for the Eastern Bering Sea (run with trophic interactions). More information available at:
www.fisheries.noaa.gov/resource/data/2018-climate-enhanced-multi-species-stock-assessment-walleye-pollock-pacific-cod-and
Three files included to support Rcode for
Holsman et al. Ecosystem-based fisheries management forestalls climate-driven collapse. Nature Climate Change (in review).
Code available at: https://github.com/kholsman/EBM_Holsman_NatComm
## Input data:
If running plotting code below (recommended) you will need to download the intermediate data "EBM_ceattlenew.Rdata" from figshare and place it in the main directory: "EBM_Holsman_NatComm/EBM_ceattlenew.Rdata".
If re-running the intermediate data analysis (not recommended) the following files will need to be downloaded unzipped and placed in the asssesment_files folder:
EBM_Holsman_NatComm/data/runs/[ files]
## Intermediate data:
Intermediate data can be found in the main EBM_Holsman_NatComm in the form of .Rdata files but can be recreated from the ADMB model using the EBM_Holsman_NatComm/assessment_scripts/README_EBM_Holsman_Analysis.pdf (not recommended; see below).
## Figures and tables:
Final figures and tables (including illustrator files that were used to add fish icons) can be found in the **Figures** folder.
This is the main script for running analysis and plotting results and requires R version 3.5.3 (available at https://cran.r-project.org/bin/macosx/el-capitan/base/). To update the analysis using .Rdata outputs run the R() code below as is currently configured. If you want to update the intermediate data, set "readdat" to TRUE in line 80 below. The CEATTLE stock assessment is also included but requires AD Model builder (http://www.admb-project.org). To run the assessment scripts (not recommended or tested outside of macOSX) see "README_EBM_Holsman_Analysis.pdf".
