diff --git a/DESCRIPTION b/DESCRIPTION index 3e362ca..7087661 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -1,6 +1,6 @@ Package: NEFSCspatial Title: Spatial data package for regions in the northeast atlantic -Version: 0.1.0 +Version: 1.0.0 Authors@R: c(person("Andy", "Beet", email = "andrew.beet@noaa.gov", role = c("aut", "cre"), comment = c(ORCID = "0000-0001-8270-7090")), person("Joshua", "Hatch", email = "joshua.hatch@noaa.gov", role = "aut"), person("Kimberly", "Bastille", email = "kimberly.bastille@noaa.gov", role = "aut")) @@ -10,7 +10,7 @@ Description: Provides spatial data as sf or raster objects for the Northeast Fis License: file LICENSE Encoding: UTF-8 Roxygen: list(markdown = TRUE) -RoxygenNote: 7.3.2 +RoxygenNote: 7.3.3 Depends: R (>= 4.0) Imports: diff --git a/NEWS.md b/NEWS.md index a894f64..fe13ee3 100644 --- a/NEWS.md +++ b/NEWS.md @@ -1,8 +1,30 @@ +# NEFSCspatial 1.0.0 + +## Major changes + +The following data were deprecated and replaced: + +* BTS_Strata -> bts_strata +* Ecomon_Strata -> ecomon_strata +* Shrimp_Strata -> shrimp_strata +* Shellfish_Strata -> oq_strata, sc_strata, scallop_strata + +The following data were added: + +* ecomon_stations + +# NEFSCspatial 0.1.1 + +## Minor fixes + +- Migrated to Bootstrap 5 +- Updated Team Members vignette + # NEFSCspatial 0.1.0 ## Data set additions/removals -- Data sets from [MDEB](Marine Development GIS Data Hub) data hub (Marine Development GIS Data Hub) +- Data sets from [MDEB](https://mdeb-nefsc-noaa.hub.arcgis.com/) data hub (Marine Development GIS Data Hub) - Scallop restricted areas - Massachusetts inshore survey strata - Deprecation warnings for data sets due to be replaced by MDEB data @@ -13,7 +35,6 @@ - Removed leaflet documentation - Standardized data set documentation with added examples - # NEFSCspatial 0.0.1 Initial release of sf objects diff --git a/R/data-bts_strata.R b/R/data-bts_strata.R new file mode 100644 index 0000000..8d19318 --- /dev/null +++ b/R/data-bts_strata.R @@ -0,0 +1,28 @@ +#' Bottom Trawl Survey +#' +#' @description An \code{sf} object containing spatial data for the Bottom Trawl Survey. Scientific survey strata for the Bottom Trawl Survey. +#' +#' @format An \code{sf} object: +#' \describe{ +#' \item{Geometry type}{POLYGON} +#' \item{Dimension}{XY} +#' \item{Bounding box}{xmin: -76.2 ymin: 34.4 xmax: -65.6 ymax: 44.5} +#' \item{Projected CRS}{WGS 84} +#' \item{Features}{82 x 16} +#' \item{Metadata}{See source} +#' } +#' +#' @docType data +#' @name bts_strata +#' @usage data('bts_strata') +#' @keywords {datasets} +#' @source {https://mdeb-nefsc-noaa.hub.arcgis.com/} +#' @examples +#' \dontrun{ +#' # Load the dataset +#' data(bts_strata) +#' +#' # Plot the geometry +#' plot(sf::st_geometry(bts_strata)) +#' } +NULL diff --git a/R/data-ecomon_stations.R b/R/data-ecomon_stations.R new file mode 100644 index 0000000..6cbc0f0 --- /dev/null +++ b/R/data-ecomon_stations.R @@ -0,0 +1,28 @@ +#' Ecosystem Monitoring Survey +#' +#' @description An \code{sf} object containing spatial data for the Ecosystem Monitoring Survey. There are thirty-five Ecosystem Monitoring fixed hydrographic sampling stations across the Northeast Shelf ecosystem. Four transects run from inshore to off the continental shelf from north of Cape Hatteras to Cape Cod. One transect bisects the Gulf of Maine from the coast of Maine and across Georges Bank. The remaining twelve stations in the Gulf of Maine sample deep basins, banks, coastal areas, and the inflow (Northeast Channel) and out flow (Great South Channel) of the gulf. +#' +#' @format An \code{sf} object: +#' \describe{ +#' \item{Geometry type}{POINT} +#' \item{Dimension}{NA} +#' \item{Bounding box}{xmin: -75.5 ymin: 36 xmax: -65.4 ymax: 44.5} +#' \item{Projected CRS}{WGS 84} +#' \item{Features}{35 x 14} +#' \item{Metadata}{See source} +#' } +#' +#' @docType data +#' @name ecomon_stations +#' @usage data('ecomon_stations') +#' @keywords {datasets} +#' @source {https://mdeb-nefsc-noaa.hub.arcgis.com/} +#' @examples +#' \dontrun{ +#' # Load the dataset +#' data(ecomon_stations) +#' +#' # Plot the geometry +#' plot(sf::st_geometry(ecomon_stations)) +#' } +NULL diff --git a/R/data-ecomon_strata.R b/R/data-ecomon_strata.R new file mode 100644 index 0000000..b1c422c --- /dev/null +++ b/R/data-ecomon_strata.R @@ -0,0 +1,28 @@ +#' Ecosystem Monitoring Survey +#' +#' @description An \code{sf} object containing spatial data for the Ecosystem Monitoring Survey. Ecosystem Monitoring plankton stations are selected using a random-stratified design based on the Northeast Fisheries Science Center bottom trawl survey design. There are forty-seven plankton strata across the Northeast Shelf ecosystem. The strata are combined into four regions from Cape Hatteras to Cape Sable (Mid-Atlantic Bight, Southern New England, Georges Bank, and Gulf of Maine). Thirty randomly selected stations are targeted for sampling from each region during a survey. +#' +#' @format An \code{sf} object: +#' \describe{ +#' \item{Geometry type}{MULTIPOLYGON} +#' \item{Dimension}{XY} +#' \item{Bounding box}{xmin: -76 ymin: 35.1 xmax: -65.2 ymax: 44.5} +#' \item{Projected CRS}{WGS 84} +#' \item{Features}{48 x 13} +#' \item{Metadata}{See source} +#' } +#' +#' @docType data +#' @name ecomon_strata +#' @usage data('ecomon_strata') +#' @keywords {datasets} +#' @source {https://mdeb-nefsc-noaa.hub.arcgis.com/} +#' @examples +#' \dontrun{ +#' # Load the dataset +#' data(ecomon_strata) +#' +#' # Plot the geometry +#' plot(sf::st_geometry(ecomon_strata)) +#' } +NULL diff --git a/R/data-shrimp_strata.R b/R/data-shrimp_strata.R new file mode 100644 index 0000000..9eed037 --- /dev/null +++ b/R/data-shrimp_strata.R @@ -0,0 +1,28 @@ +#' Northern Shrimp Survey +#' +#' @description An \code{sf} object containing spatial data for the Northern Shrimp Survey. Scientific survey strata for the Northern Shrimp Survey. +#' +#' @format An \code{sf} object: +#' \describe{ +#' \item{Geometry type}{POLYGON} +#' \item{Dimension}{XY} +#' \item{Bounding box}{xmin: -70.7 ymin: 41.1 xmax: -68 ymax: 44.1} +#' \item{Projected CRS}{WGS 84} +#' \item{Features}{12 x 9} +#' \item{Metadata}{See source} +#' } +#' +#' @docType data +#' @name shrimp_strata +#' @usage data('shrimp_strata') +#' @keywords {datasets} +#' @source {https://mdeb-nefsc-noaa.hub.arcgis.com/} +#' @examples +#' \dontrun{ +#' # Load the dataset +#' data(shrimp_strata) +#' +#' # Plot the geometry +#' plot(sf::st_geometry(shrimp_strata)) +#' } +NULL diff --git a/R/data_BTS_strata.R b/R/data_BTS_strata.R deleted file mode 100644 index 5dbc7a9..0000000 --- a/R/data_BTS_strata.R +++ /dev/null @@ -1,25 +0,0 @@ -#' `r lifecycle::badge("deprecated")` -#' -#' NEFSC Bottom Trawl Survey Strata -#' -#' An \code{sf} object containing the boundaries of the NEFSC bottom trawl survey strata. -#' This set of strata is considered historical. (Pre 2000). -#' -#' @format An \code{sf} object: -#' \describe{ -#' \item{Geometry type}{POLYGON} -#' \item{dimension}{XY} -#' \item{Bounding box}{xmin: -79.18422 ymin: 32.50221 xmax: -65.16869 ymax: 44.83202} -#' \item{Geodetic CRS}{NAD 83} -#' \item{Features}{185 x 10} -#' \item{Metadata}{See source} -#' } -#' -#' @docType data -#' @name BTS_Strata -#' @usage data("BTS_Strata") -#' @keywords datasets -#' @source \url{https://drive.google.com/drive/folders/15s70lDwezatlNVReDMWRJadtlklMYSnC} -#' @source \url{https://www.fisheries.noaa.gov/inport/item/33471} -#' @note Use \url{https://mdeb-nefsc-noaa.hub.arcgis.com/datasets/noaa::bottom-trawl-survey/about} instead. -NULL diff --git a/R/data_EcoMon_Strata.R b/R/data_EcoMon_Strata.R deleted file mode 100644 index ef3c0d5..0000000 --- a/R/data_EcoMon_Strata.R +++ /dev/null @@ -1,24 +0,0 @@ -#' `r lifecycle::badge("deprecated")` -#' -#' Ecosystem Monitoring Cruise (EcoMon) strata -#' -#' An sf object containing the EcoMon strata -#' -#' @format A data frame/ \code{sf} object -#' \describe{ -#' \item{Geometry type}{POLYGON} -#' \item{Dimension}{XY} -#' \item{Bounding box}{xmin: -75.96791 ymin: 35.14219 xmax: -65.16869 ymax: 44.48558} -#' \item{Geodetic CRS}{NAD83} -#' \item{Features}{47 x 4} -#' \item{Metadata}{See source} -#' } -#' -#' -#' @docType data -#' @name EcoMon_Strata -#' @usage data("EcoMon_Strata") -#' @keywords datasets -#' @source \url{https://www.fisheries.noaa.gov/inport/item/33468} -#' @note Use \url{https://mdeb-nefsc-noaa.hub.arcgis.com/datasets/noaa::ecosystem-monitoring-survey/about} instead. -NULL diff --git a/R/data_Shellfish_strata.R b/R/data_Shellfish_strata.R deleted file mode 100644 index 4d283e9..0000000 --- a/R/data_Shellfish_strata.R +++ /dev/null @@ -1,24 +0,0 @@ -#' `r lifecycle::badge("deprecated")` -#' -#' Shellfish strata (Clam and Scallop surveys) -#' -#' An sf object containing the Clam and Scallop survey strata -#' -#' @format A data frame/ \code{sf} object -#' \describe{ -#' \item{Geometry type}{POLYGON} -#' \item{Dimension}{XY} -#' \item{Bounding box}{xmin: -75.95982 ymin: 35.50142 xmax: -65.89944 ymax: 42.16817} -#' \item{Geodetic CRS}{NAD83} -#' \item{Features}{97 x 10} -#' \item{Metadata}{See source} -#' } -#' -#' -#' @docType data -#' @name Shellfish_Strata -#' @usage data("Shellfish_Strata") -#' @keywords datasets -#' @source \url{https://www.fisheries.noaa.gov/inport/item/33466} -#' @note Use \url{https://mdeb-nefsc-noaa.hub.arcgis.com/maps/noaa::atlantic-surfclam-and-ocean-quahog-survey/about} or \url{https://mdeb-nefsc-noaa.hub.arcgis.com/maps/noaa::sea-scallop-survey/about} instead. -NULL diff --git a/R/data_Shrimp_strata.R b/R/data_Shrimp_strata.R deleted file mode 100644 index 49845bc..0000000 --- a/R/data_Shrimp_strata.R +++ /dev/null @@ -1,24 +0,0 @@ -#' `r lifecycle::badge("deprecated")` -#' -#' Shrimp survey strata -#' -#' An sf object containing the Shrimp survey strata -#' -#' @format A data frame/ \code{sf} object -#' \describe{ -#' \item{Geometry type}{POLYGON} -#' \item{Dimension}{XY} -#' \item{Bounding box}{xmin: -70.68152 ymin: 41.08476 xmax: -67.99941 ymax: 44.08762} -#' \item{Geodetic CRS}{NAD83} -#' \item{Features}{12 x 5} -#' \item{Metadata}{See source} -#' } -#' -#' -#' @docType data -#' @name Shrimp_Strata -#' @usage data("Shrimp_Strata") -#' @keywords datasets -#' @source \url{https://www.fisheries.noaa.gov/inport/item/33470} -#' @note Use \url{https://mdeb-nefsc-noaa.hub.arcgis.com/datasets/noaa::northern-shrimp-survey/about} instead. -NULL diff --git a/R/zzz.R b/R/zzz.R deleted file mode 100644 index 7be60d4..0000000 --- a/R/zzz.R +++ /dev/null @@ -1,19 +0,0 @@ -## Issue deprecation warning -.onAttach <- function(libname, pkgname) { - packageStartupMessage( - paste( - "Note: The following datasets are deprecated and will be removed in a future version:", - " • BTS_Strata", - " • EcoMon_Strata", - " • Shellfish_Strata", - " • Shrimp_Strata", - "Please use https://mdeb-nefsc-noaa.hub.arcgis.com/datasets instead:", - " +/noaa::bottom-trawl-survey/about", - " +/noaa::ecosystem-monitoring-survey/about", - " +/noaa::atlantic-surfclam-and-ocean-quahog-survey/about", - " +/noaa::sea-scallop-survey/about", - " +/noaa::northern-shrimp-survey/about", - sep = "\n" - ) - ) -} diff --git a/README.md b/README.md index 3fad141..b62b4ee 100644 --- a/README.md +++ b/README.md @@ -20,4 +20,4 @@ This repository is a scientific product and is not official communication of the NOAA Fisheries -[U.S. Department of Commerce](https://www.commerce.gov/) | [National Oceanographic and Atmospheric Administration](https://www.noaa.gov) | [NOAA Fisheries](https://www.fisheries.noaa.gov/) | [NEFSC](https://www.fisheries.noaa.gov/about/northeast-fisheries-science-center) +[U.S. Department of Commerce](https://www.commerce.gov/) | [NOAA](https://www.noaa.gov) | [NOAA Fisheries](https://www.fisheries.noaa.gov/) | [NEFSC](https://www.fisheries.noaa.gov/about/northeast-fisheries-science-center) diff --git a/data/BTS_Strata.rda b/data/BTS_Strata.rda deleted file mode 100644 index aa7c267..0000000 Binary files a/data/BTS_Strata.rda and /dev/null differ diff --git a/data/EcoMon_Strata.rda b/data/EcoMon_Strata.rda deleted file mode 100644 index 1e52aed..0000000 Binary files a/data/EcoMon_Strata.rda and /dev/null differ diff --git a/data/Shellfish_Strata.rda b/data/Shellfish_Strata.rda deleted file mode 100644 index cc79cd4..0000000 Binary files a/data/Shellfish_Strata.rda and /dev/null differ diff --git a/data/Shrimp_Strata.rda b/data/Shrimp_Strata.rda deleted file mode 100644 index 379e905..0000000 Binary files a/data/Shrimp_Strata.rda and /dev/null differ diff --git a/data/bts_strata.rda b/data/bts_strata.rda new file mode 100644 index 0000000..03277ad Binary files /dev/null and b/data/bts_strata.rda differ diff --git a/data/ecomon_stations.rda b/data/ecomon_stations.rda new file mode 100644 index 0000000..b573519 Binary files /dev/null and b/data/ecomon_stations.rda differ diff --git a/data/ecomon_strata.rda b/data/ecomon_strata.rda new file mode 100644 index 0000000..c36e3b5 Binary files /dev/null and b/data/ecomon_strata.rda differ diff --git a/data/shrimp_strata.rda b/data/shrimp_strata.rda new file mode 100644 index 0000000..6dfbc72 Binary files /dev/null and b/data/shrimp_strata.rda differ diff --git a/man/BTS_Strata.Rd b/man/BTS_Strata.Rd deleted file mode 100644 index 20f27b7..0000000 --- a/man/BTS_Strata.Rd +++ /dev/null @@ -1,36 +0,0 @@ -% Generated by roxygen2: do not edit by hand -% Please edit documentation in R/data_BTS_strata.R -\docType{data} -\name{BTS_Strata} -\alias{BTS_Strata} -\title{\ifelse{html}{\href{https://lifecycle.r-lib.org/articles/stages.html#deprecated}{\figure{lifecycle-deprecated.svg}{options: alt='[Deprecated]'}}}{\strong{[Deprecated]}}} -\format{ -An \code{sf} object: -\describe{ -\item{Geometry type}{POLYGON} -\item{dimension}{XY} -\item{Bounding box}{xmin: -79.18422 ymin: 32.50221 xmax: -65.16869 ymax: 44.83202} -\item{Geodetic CRS}{NAD 83} -\item{Features}{185 x 10} -\item{Metadata}{See source} -} -} -\source{ -\url{https://drive.google.com/drive/folders/15s70lDwezatlNVReDMWRJadtlklMYSnC} - -\url{https://www.fisheries.noaa.gov/inport/item/33471} -} -\usage{ -data("BTS_Strata") -} -\description{ -NEFSC Bottom Trawl Survey Strata -} -\details{ -An \code{sf} object containing the boundaries of the NEFSC bottom trawl survey strata. -This set of strata is considered historical. (Pre 2000). -} -\note{ -Use \url{https://mdeb-nefsc-noaa.hub.arcgis.com/datasets/noaa::bottom-trawl-survey/about} instead. -} -\keyword{datasets} diff --git a/man/EcoMon_Strata.Rd b/man/EcoMon_Strata.Rd deleted file mode 100644 index f31b80d..0000000 --- a/man/EcoMon_Strata.Rd +++ /dev/null @@ -1,33 +0,0 @@ -% Generated by roxygen2: do not edit by hand -% Please edit documentation in R/data_EcoMon_Strata.R -\docType{data} -\name{EcoMon_Strata} -\alias{EcoMon_Strata} -\title{\ifelse{html}{\href{https://lifecycle.r-lib.org/articles/stages.html#deprecated}{\figure{lifecycle-deprecated.svg}{options: alt='[Deprecated]'}}}{\strong{[Deprecated]}}} -\format{ -A data frame/ \code{sf} object -\describe{ -\item{Geometry type}{POLYGON} -\item{Dimension}{XY} -\item{Bounding box}{xmin: -75.96791 ymin: 35.14219 xmax: -65.16869 ymax: 44.48558} -\item{Geodetic CRS}{NAD83} -\item{Features}{47 x 4} -\item{Metadata}{See source} -} -} -\source{ -\url{https://www.fisheries.noaa.gov/inport/item/33468} -} -\usage{ -data("EcoMon_Strata") -} -\description{ -Ecosystem Monitoring Cruise (EcoMon) strata -} -\details{ -An sf object containing the EcoMon strata -} -\note{ -Use \url{https://mdeb-nefsc-noaa.hub.arcgis.com/datasets/noaa::ecosystem-monitoring-survey/about} instead. -} -\keyword{datasets} diff --git a/man/Shellfish_Strata.Rd b/man/Shellfish_Strata.Rd deleted file mode 100644 index dd10681..0000000 --- a/man/Shellfish_Strata.Rd +++ /dev/null @@ -1,33 +0,0 @@ -% Generated by roxygen2: do not edit by hand -% Please edit documentation in R/data_Shellfish_strata.R -\docType{data} -\name{Shellfish_Strata} -\alias{Shellfish_Strata} -\title{\ifelse{html}{\href{https://lifecycle.r-lib.org/articles/stages.html#deprecated}{\figure{lifecycle-deprecated.svg}{options: alt='[Deprecated]'}}}{\strong{[Deprecated]}}} -\format{ -A data frame/ \code{sf} object -\describe{ -\item{Geometry type}{POLYGON} -\item{Dimension}{XY} -\item{Bounding box}{xmin: -75.95982 ymin: 35.50142 xmax: -65.89944 ymax: 42.16817} -\item{Geodetic CRS}{NAD83} -\item{Features}{97 x 10} -\item{Metadata}{See source} -} -} -\source{ -\url{https://www.fisheries.noaa.gov/inport/item/33466} -} -\usage{ -data("Shellfish_Strata") -} -\description{ -Shellfish strata (Clam and Scallop surveys) -} -\details{ -An sf object containing the Clam and Scallop survey strata -} -\note{ -Use \url{https://mdeb-nefsc-noaa.hub.arcgis.com/maps/noaa::atlantic-surfclam-and-ocean-quahog-survey/about} or \url{https://mdeb-nefsc-noaa.hub.arcgis.com/maps/noaa::sea-scallop-survey/about} instead. -} -\keyword{datasets} diff --git a/man/Shrimp_Strata.Rd b/man/Shrimp_Strata.Rd deleted file mode 100644 index f771a95..0000000 --- a/man/Shrimp_Strata.Rd +++ /dev/null @@ -1,33 +0,0 @@ -% Generated by roxygen2: do not edit by hand -% Please edit documentation in R/data_Shrimp_strata.R -\docType{data} -\name{Shrimp_Strata} -\alias{Shrimp_Strata} -\title{\ifelse{html}{\href{https://lifecycle.r-lib.org/articles/stages.html#deprecated}{\figure{lifecycle-deprecated.svg}{options: alt='[Deprecated]'}}}{\strong{[Deprecated]}}} -\format{ -A data frame/ \code{sf} object -\describe{ -\item{Geometry type}{POLYGON} -\item{Dimension}{XY} -\item{Bounding box}{xmin: -70.68152 ymin: 41.08476 xmax: -67.99941 ymax: 44.08762} -\item{Geodetic CRS}{NAD83} -\item{Features}{12 x 5} -\item{Metadata}{See source} -} -} -\source{ -\url{https://www.fisheries.noaa.gov/inport/item/33470} -} -\usage{ -data("Shrimp_Strata") -} -\description{ -Shrimp survey strata -} -\details{ -An sf object containing the Shrimp survey strata -} -\note{ -Use \url{https://mdeb-nefsc-noaa.hub.arcgis.com/datasets/noaa::northern-shrimp-survey/about} instead. -} -\keyword{datasets} diff --git a/man/bts_strata.Rd b/man/bts_strata.Rd new file mode 100644 index 0000000..8d6bb46 --- /dev/null +++ b/man/bts_strata.Rd @@ -0,0 +1,36 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/data-bts_strata.R +\docType{data} +\name{bts_strata} +\alias{bts_strata} +\title{Bottom Trawl Survey} +\format{ +An \code{sf} object: +\describe{ +\item{Geometry type}{POLYGON} +\item{Dimension}{XY} +\item{Bounding box}{xmin: -76.2 ymin: 34.4 xmax: -65.6 ymax: 44.5} +\item{Projected CRS}{WGS 84} +\item{Features}{82 x 16} +\item{Metadata}{See source} +} +} +\source{ +{https://mdeb-nefsc-noaa.hub.arcgis.com/} +} +\usage{ +data('bts_strata') +} +\description{ +An \code{sf} object containing spatial data for the Bottom Trawl Survey. Scientific survey strata for the Bottom Trawl Survey. +} +\examples{ +\dontrun{ +# Load the dataset +data(bts_strata) + +# Plot the geometry +plot(sf::st_geometry(bts_strata)) +} +} +\keyword{{datasets}} diff --git a/man/ecomon_stations.Rd b/man/ecomon_stations.Rd new file mode 100644 index 0000000..87b1837 --- /dev/null +++ b/man/ecomon_stations.Rd @@ -0,0 +1,36 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/data-ecomon_stations.R +\docType{data} +\name{ecomon_stations} +\alias{ecomon_stations} +\title{Ecosystem Monitoring Survey} +\format{ +An \code{sf} object: +\describe{ +\item{Geometry type}{POINT} +\item{Dimension}{NA} +\item{Bounding box}{xmin: -75.5 ymin: 36 xmax: -65.4 ymax: 44.5} +\item{Projected CRS}{WGS 84} +\item{Features}{35 x 14} +\item{Metadata}{See source} +} +} +\source{ +{https://mdeb-nefsc-noaa.hub.arcgis.com/} +} +\usage{ +data('ecomon_stations') +} +\description{ +An \code{sf} object containing spatial data for the Ecosystem Monitoring Survey. There are thirty-five Ecosystem Monitoring fixed hydrographic sampling stations across the Northeast Shelf ecosystem. Four transects run from inshore to off the continental shelf from north of Cape Hatteras to Cape Cod. One transect bisects the Gulf of Maine from the coast of Maine and across Georges Bank. The remaining twelve stations in the Gulf of Maine sample deep basins, banks, coastal areas, and the inflow (Northeast Channel) and out flow (Great South Channel) of the gulf. +} +\examples{ +\dontrun{ +# Load the dataset +data(ecomon_stations) + +# Plot the geometry +plot(sf::st_geometry(ecomon_stations)) +} +} +\keyword{{datasets}} diff --git a/man/ecomon_strata.Rd b/man/ecomon_strata.Rd new file mode 100644 index 0000000..6bfd142 --- /dev/null +++ b/man/ecomon_strata.Rd @@ -0,0 +1,36 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/data-ecomon_strata.R +\docType{data} +\name{ecomon_strata} +\alias{ecomon_strata} +\title{Ecosystem Monitoring Survey} +\format{ +An \code{sf} object: +\describe{ +\item{Geometry type}{MULTIPOLYGON} +\item{Dimension}{XY} +\item{Bounding box}{xmin: -76 ymin: 35.1 xmax: -65.2 ymax: 44.5} +\item{Projected CRS}{WGS 84} +\item{Features}{48 x 13} +\item{Metadata}{See source} +} +} +\source{ +{https://mdeb-nefsc-noaa.hub.arcgis.com/} +} +\usage{ +data('ecomon_strata') +} +\description{ +An \code{sf} object containing spatial data for the Ecosystem Monitoring Survey. Ecosystem Monitoring plankton stations are selected using a random-stratified design based on the Northeast Fisheries Science Center bottom trawl survey design. There are forty-seven plankton strata across the Northeast Shelf ecosystem. The strata are combined into four regions from Cape Hatteras to Cape Sable (Mid-Atlantic Bight, Southern New England, Georges Bank, and Gulf of Maine). Thirty randomly selected stations are targeted for sampling from each region during a survey. +} +\examples{ +\dontrun{ +# Load the dataset +data(ecomon_strata) + +# Plot the geometry +plot(sf::st_geometry(ecomon_strata)) +} +} +\keyword{{datasets}} diff --git a/man/shrimp_strata.Rd b/man/shrimp_strata.Rd new file mode 100644 index 0000000..ea9cc5f --- /dev/null +++ b/man/shrimp_strata.Rd @@ -0,0 +1,36 @@ +% Generated by roxygen2: do not edit by hand +% Please edit documentation in R/data-shrimp_strata.R +\docType{data} +\name{shrimp_strata} +\alias{shrimp_strata} +\title{Northern Shrimp Survey} +\format{ +An \code{sf} object: +\describe{ +\item{Geometry type}{POLYGON} +\item{Dimension}{XY} +\item{Bounding box}{xmin: -70.7 ymin: 41.1 xmax: -68 ymax: 44.1} +\item{Projected CRS}{WGS 84} +\item{Features}{12 x 9} +\item{Metadata}{See source} +} +} +\source{ +{https://mdeb-nefsc-noaa.hub.arcgis.com/} +} +\usage{ +data('shrimp_strata') +} +\description{ +An \code{sf} object containing spatial data for the Northern Shrimp Survey. Scientific survey strata for the Northern Shrimp Survey. +} +\examples{ +\dontrun{ +# Load the dataset +data(shrimp_strata) + +# Plot the geometry +plot(sf::st_geometry(shrimp_strata)) +} +} +\keyword{{datasets}} diff --git a/pkgdown/_pkgdown.yml b/pkgdown/_pkgdown.yml index 0a008df..fe9f505 100644 --- a/pkgdown/_pkgdown.yml +++ b/pkgdown/_pkgdown.yml @@ -1,47 +1,52 @@ url: https://nefsc.github.io/NEFSC-Spatial/ +home: + title: NEFSC Spatial Data for R + +authors: + Andy Beet: + href: https://andybeet.com + Joshua Hatch: + href: https://github.com/jmhatch-NOAA + Kimberly Bastille: + href: https://github.com/kimberly-bastille + template: - bootstrap: 3 + bootstrap: 5 + math-rendering: mathjax + light-switch: false + bslib: + primary: "#004391" + danger: "#0085CA" + border-radius: 0.5rem + btn-border-radius: 0.25rem deploy: install_metadata: true navbar: + bg: primary structure: - left: - - home - - getting started - - reference - - issue - - articles - right: - - search - - github + left: [getting started, reference, issue, articles, news] + right: [search, github] components: - home: - icon: fas fa-home fa-lg - href: index.html - aria-label: Home getting started: text: Getting Started - icon: fas fa-solid fa-play href: articles/NEFSCspatial.html reference: text: Data - icon: fas fa-database fa-lg href: reference/index.html issue: text: Issues - icon: fas fa-question-circle fa-lg href: https://github.com/NEFSC/NEFSC-Spatial/issues articles: text: Articles - icon: fas fa-file-contract fa-lg menu: - - text: MDEB datasets + - text: MDEB Datasets href: articles/mdeb_datasets.html - text: Team Members href: articles/teamMembers.html + reference: - title: Fishing Areas / Management Areas desc: Areas in which fishing is reported @@ -63,10 +68,6 @@ reference: - title: Survey Strata desc: Areas in which survey sampling is reported - contents: - - "BTS_Strata" - - "EcoMon_Strata" - - "Shellfish_Strata" - - "Shrimp_Strata" - contains("strata") - ends_with("stations") - ends_with("deployments") @@ -75,12 +76,3 @@ reference: desc: Areas defining model boundaries - contents: - "Neus_atlantis" - - -authors: - Andy Beet: - href: https://andybeet.com - Kimberly Bastille: - href: https://github.com/kimberly-bastille - Joshua Hatch: - href: https://github.com/jmhatch-NOAA diff --git a/pkgdown/extra.css b/pkgdown/extra.css index 5d3630a..1b8694a 100644 --- a/pkgdown/extra.css +++ b/pkgdown/extra.css @@ -1,203 +1,12 @@ -/*---Use template from: https://ocsdata.ncd.noaa.gov/HSRP/css/ocs-fonts.css---*/ -/*---Use template from: https://www.legislative.noaa.gov/noaa-web/css/contentFormatting.css---*/ -body { - font-family: "Open Sans", sans-serif; - font-size: 14px; - line-height: 1.42857143; - color: #000000; - background-color: #FFFFFF; +h1, h2, h3, h4, h5, h6 { + color: #004391 !important; } -.fas fa-home fa-lg{ - background-color: #FFFFFF; +.form-inline .form-control { + background-color: #f0f0f0; } -h1, h2, h3, h4, h5, h6, p { - font-family: "Open Sans", sans-serif; - color: #00467f; -} - - -h1 { - font-size: 36px; -} - -h2 { - font-size: 20px; -} - -h3 { - font-size: 18px -} - -h4 { - font-size: 16px -} - -h5 { - font-size: 14px; - line-height: 22px; - margin-bottom: 10px; -} - -h6 { - font-size: 14px; -} - -p { - margin-top: 0px; - line-height: 19px; - margin-bottom: .9em; - text-align: left; - color: #000000; -} - -h1.title { - font-family: "Open Sans", sans-serif; - font-size: 40px; - line-height: 40px; - margin-bottom: 25px; - letter-spacing: 0px; - font-weight: 700; - color: #00467f; -} - -h1.mobile { - font-family: "Open Sans", sans-serif; - font-size: 40px; - line-height: 40px; - margin-bottom: 25px; - letter-spacing: 0px; 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-} - -/*---footer---*/ -footer { - font-size: 14px; - color: #00467f; - background-color: #FFFFFF; - padding-top: 15px; - margin-bottom: 0px; - border-radius: 0px; - width: auto; -} - -footer p { - margin-left: 3px; - margin-right: 3px; - color: #00467f; -} - -footer a:link { color: #00467f; text-decoration: none; } -footer a:visited { color: #00467f; text-decoration: none; } -footer a:hover { color: #00467f; text-decoration: none; } - -/*---fix footer txt alignment---*/ -footer .pkgdown p { - text-align: right; -} - -footer .copyright p { - text-align: left; -} +.form-inline .form-control::placeholder { + color: #004391; + opacity: 0.5; +} \ No newline at end of file diff --git a/vignettes/teamMembers.Rmd b/vignettes/teamMembers.Rmd index bcb305e..6bb31c8 100644 --- a/vignettes/teamMembers.Rmd +++ b/vignettes/teamMembers.Rmd @@ -17,4 +17,4 @@ knitr::opts_chunk$set(echo = TRUE) |---|---|---|---| | Kimberly Bastille | [kimberly-bastille](https://github.com/kimberly-bastille) | READ | SSB | | Andy Beet| [andybeet](https://github.com/andybeet) | READ | EDAB | -| Joshua Hatch | [jmhatch](https://github.com/jmhatch) | PEMAD | OWEB | +| Joshua Hatch | [jmhatch](https://github.com/jmhatch) | PEMAD | MDEB |