README

Materials for Tampa Bay Nekton Index Dashboard, link

Annual update

FIM typically provides preprocessed nekton data July/August for the preceding year. New files must be pushed to the data folder of the tbni-proc repository. These include TampaBay_NektonIndexData.csv and TBIndex_spp_codes.rds available on Google Drive here.
In tbeptools, recreate tbnispp (do before fimdata, done in data-raw/tbnispp-raw.R), fimdata, fimstations with the new data and update file info in Roxygen. The fimdata and fimstations object can be updated from the code in the examples for each file. Push updates to GitHub and reinstall new version of tbeptools on local machine.
Reinstall tbeptools locally and run R/dat_proc.R to update the data for the dashboard. Push to GitHub and pull to server.
Docker image will need to be recreated with tbeptools update (once on R-Universe), but can install in the running container directly on the server. Pull new image to server when done and restart instance.
Update nekton Rmd in State of the Bay repo
Update CCMP FW-5 page using quarto publish gh-pages in CMD line. Site builds automatically with GH-Actions, but it required a push to trigger.
Update data viz page on TBEP website https://tbep.org/tampa-bay-nekton-index/ using SOB script at https://github.com/tbep-tech/State-of-the-Bay/blob/master/createfigs.R