Materials for the Tampa Bay benthic data dashboard.

1. Benthic and sediment data are provided to TBEP by EPC typically in December. Note that the updated year will lag the current year. Update the files in tbeptools with these data.
   • R/benthicdata.R, run examples to update R/benthicdata.RData and update Roxygen with date of update (may need to change some column names in R/read_formbenthic.R)
   • R/sedimentdata.R, run examples to update R/sedimentdata.RData file and update Roxygen with file dims and date of update
   • Update dates in R/anlz_tbbimed.R, R/show_tbbimatrix.R, R/anlz_sedimentaddtot.R, R/anlz_sedimentave.R, R/anlz_sedidmentpel.R, R/anlz_sedimentpelave.R, R/show_sedimentalratio.R, R/show_sedimentave.R, R/show_sedimentmap.R, R/show_sedimentpelave.R, R/show_sedimentpelmap.R
   • Run devtools::document() to update documentation
   • Update dates in vignettes/tbbi.Rmd
   • Update date/version DESCRIPTION file
   • Commit and push changes to GitHub
2. Reinstall tbeptools locally and update maxyr in R/dat_proc.R and maxyr in index.Rmd in this repository
   • Source R/dat_proc.R to update datasets. This should update all files in data/ folder excluding data/segmask.Rdata.
   • Commit and push changes to GitHub
   • Log on to TBEP server and pull changes to benthic-dash repository
3. Update state of the bay page to update the figure on the TBEP data viz page and the benthic document for tbep.org/estuary/state-of-the-bay/
   • Change maxyr and reprocess figure/tbbireport.jpg in createfigs.R
   • Change year range and reprocess figures/pel.png in createfigs.R
   • docs/tampa-bay-benthic-index.Rmd change maxyr and reknit
   • Commit and push changes to GitHub
4. Update CCMP
   • docs/water/coc1.qmd is the only one that needs updating. Nothing needs to change, just re-render the website locally using quarto publish gh-pages or manually trigger the build on the repo page (otherwise, a commit needs to be pushed to trigger it).