docs/vignettes

.Rbuildignore

@@ -16,3 +16,5 @@ README.Rmd
 ^CRAN-SUBMISSION$
 ^data-raw$
 ^CITATION\.cff$
+^doc$
+^Meta$

.gitignore

@@ -6,3 +6,5 @@ docs/reference/*.pdf
 README_files
 docs
 inst/doc
+/doc/
+/Meta/

DESCRIPTION

@@ -19,6 +19,7 @@ URL: https://ncss-tech.github.io/soilDB/, https://ncss-tech.github.io/AQP/
 BugReports: https://github.com/ncss-tech/soilDB/issues
 RoxygenNote: 7.2.3
 Encoding: UTF-8
+Language: en-US
 Roxygen: list(markdown = TRUE)
 LazyData: false
 VignetteBuilder: knitr

R/fetchSoilGrids.R

@@ -41,7 +41,7 @@
 #'  - **Common soil chemical and physical properties:**
 #'    Poggio, L., de Sousa, L. M., Batjes, N. H., Heuvelink, G. B. M., Kempen, B., Ribeiro, E., and Rossiter, D.: SoilGrids 2.0: producing soil information for the globe with quantified spatial uncertainty, SOIL, 7, 217–240, 2021. DOI: \doi{https://doi.org/10.5194/soil-7-217-2021}
 #'  - **Soil water content at different pressure heads:**
-#'    Turek, M.E.,  Poggio, L., Batjes, N. H., Armindo, R. A.,  de Jong van Lier, Q.,  de Sousa, L.M.,  Heuvelink, G. B. M. : Global mapping of volumetric water retention at 100, 330 and 15 000 cm suction using the WoSIS database, International Soil and Water Conservation Research, 11-2, 225-239, 2023. DOI: \doi{https://doi.org/10.1016/j.iswcr.2022.08.001}
+#'    Turek, M.E.,  Poggio, L., Batjes, N. H., Armindo, R. A.,  de Jong van Lier, Q.,  de Sousa, L.M.,  Heuvelink, G. B. M. : Global mapping of volumetric water retention at 100, 330 and 15000 cm suction using the WoSIS database, International Soil and Water Conservation Research, 11-2, 225-239, 2023. DOI: \doi{https://doi.org/10.1016/j.iswcr.2022.08.001}
 #' 
 #' @importFrom utils packageVersion
 #'

R/get_SDA_coecoclass.R

@@ -15,7 +15,7 @@
 #' @param not_rated_value Default: `"Not assigned"`
 #' @param miscellaneous_areas logical. Include miscellaneous areas (non-soil components)?
 #' @param include_minors logical. Include minor components? Default: `TRUE`.
-#' @param threshold integer. Default: `0`. Minimum combined component percentage (RV) for inclusion of a mapunit's ecological site in wide-format tabular sumamry. Used only for `method="all"`.
+#' @param threshold integer. Default: `0`. Minimum combined component percentage (RV) for inclusion of a mapunit's ecological site in wide-format tabular summary. Used only for `method="all"`.
 #' @param dsn Path to local SQLite database or a DBIConnection object. If `NULL` (default) use Soil Data Access API via `SDA_query()`.
 #' @export 
 get_SDA_coecoclass <- function(method = "None",

inst/WORDLIST

@@ -9,13 +9,17 @@ AWM
 Abbema
 Albers
 Alfisols
+Armindo
+Aronia
 BBOX
 BD
 BLM
 Batjes
 Bioaccumulation
+Biochar
 Biosolids
 Bocinsky
+Bohn
 Bouten
 CEC
 CIE
@@ -26,6 +30,7 @@ CMECS
 CODELABEL
 CONUS
 CRS
+CZSS
 CaCO
 CaCl
 Caliche
@@ -47,10 +52,10 @@ DAYMET
 DBH
 DBIConnection
 DMU
+DOI
 Deadweight
 Deschutes
 Desertic
-DirectDownLoad
 Disking
 DisplayLabel
 DomainID
@@ -66,19 +71,22 @@ Eelgrass
 Electrial
 Erodibility
 Extractable
+FGDB
 FOTG
 FSG
 Filterw
 GCS
+GDAL
 GDB
 GDB's
 GDBs
-GDGHome
+GEOMETRYCOLLECTION
 GHCND
 GRL
 Genuchten
 GeoJSON
 GeoPackage
+GeoTIFF
 Geochemical
 Geodatabase
 Geodatabases
@@ -93,37 +101,44 @@ HTTPS
 Hayland
 Helens
 Heuvelink
+Highbush
 Hillslope
 Hydrologic
 IRR
 ISDH
+ISRIC
 ISRIC's
 ISSR
 IUSS
 Infil
+Interp
 Irr
 JMS
 JSON
+Jong
 KSSL
 Karner
 Kempen
 Kf
 Ki
 Klamath
 Kosugi
+Krueger
 LAWR
 LDM
 LEP
 LIMS
 LRADT
+LZW
 Leij
-MAAT
+Lier
 METACRAN
 MLRA
 MLRAs
 MSST
 MUKEY
 MUKEYS
+MULTIPOLYGON
 MWST
 MacOS
 Malheur
@@ -151,6 +166,7 @@ NCCPI
 NCDC
 NCSS
 NIRR
+NLI
 NOAA
 NPS
 NRCS
@@ -168,7 +184,6 @@ Ochoco
 Okanogan
 Operability
 Oxalate
-PGI
 PIA
 POSIXlt
 PRCP
@@ -206,6 +221,8 @@ Roxygen
 SAR
 SDA
 SG
+SHSI
+SLAMM
 SMR
 SMS
 SNOTEL
@@ -224,6 +241,7 @@ SSURGO
 STATSGO
 STO
 STR
+Salinization
 Schaap
 Schlaepfer
 Septage
@@ -239,6 +257,7 @@ SoilWeb
 SoillWeb
 Soilscapes
 SpatRaster
+SpatVector
 SpatialLines
 SpatialPoints
 SpatialPolygonDataFrame
@@ -250,8 +269,11 @@ Sys
 TAVG
 TMAX
 TMIN
+TROP
 Trafficability
+Turek
 UCD
+UCDavis
 URB
 USFS
 Umatilla
@@ -262,7 +284,6 @@ Vadose
 Veh
 Ver
 Vinifera
-WAQ
 WCS
 WDIRV
 WGS
@@ -277,6 +298,7 @@ Wegner
 Wenatchee
 Windthrow
 Winema
+WoSIS
 XMLSchema
 XRD
 Yonggen
@@ -306,9 +328,9 @@ argi
 argic
 argillic
 aridic
-aspx
 attr
 awc
+balancer
 bbox
 bdod
 caco
@@ -339,13 +361,11 @@ cosoilmoist
 cosurfmorphgc
 cosurfmorphhpp
 cosurfmorphss
-cran
 createStaticNASIS
 cryic
 cryo
 cryoturbation
 cumulic
-datagateway
 datamapunit
 datatypes
 datums
@@ -374,6 +394,7 @@ dystro
 ec
 ecec
 ecoclass
+ecoclassid
 ecosite
 edu
 endo
@@ -423,6 +444,7 @@ freeiron
 fulltext
 fulv
 fulvi
+gNATGSO
 gNATSGO
 gSSURGO
 gage
@@ -441,7 +463,6 @@ geomposmntn
 geompostrce
 getHzErrorsPedonPC
 ggplot
-github
 glac
 glacic
 glossaquic
@@ -485,7 +506,6 @@ hzname
 illuvial
 ing
 interfingered
-io
 joaquin
 jornada
 jsonlite
@@ -516,6 +536,7 @@ loafercreek
 luvi
 makeChunks
 mapunit
+mapunit's
 mapunits
 mapview
 mcacl
@@ -541,7 +562,6 @@ natr
 natri
 natric
 ncdc
-ncss
 nm
 nmsu
 noaa
@@ -591,8 +611,10 @@ psammo
 pscbotdepth
 psctopdepth
 ptotal
+quadrat
 quartzi
 rasterVis
+rasters
 rcasiteid
 rda
 recalibration
@@ -623,6 +645,7 @@ sandvf
 sapr
 sapric
 sar
+saturationt
 sc
 serializer
 seriesExtent
@@ -656,6 +679,7 @@ sulf
 sulfi
 sulfic
 sulfo
+sumamry
 sumbases
 surfaceshape
 taxclname
@@ -665,6 +689,7 @@ taxorder
 taxsuborder
 taxtempregime
 techsoilservice
+terra
 terric
 tfact
 th
@@ -718,6 +743,7 @@ wps
 wsatiated
 wtenthbar
 wthirdbar
+wv
 www
 xanthic
 xer

vignettes/fetchNASIS.Rmd

@@ -1,11 +1,6 @@
 ---
 title: "fetchNASIS(from='pedons') Columns"
-output: 
-  rmarkdown::html_document:
-    toc: true
-    toc_float:
-      toc_collapsed: true
-    toc_depth: 3
+output: rmarkdown::html_vignette
 vignette: >
   %\VignetteIndexEntry{fetchNASIS(from='pedons') Columns}
   %\VignetteEngine{knitr::rmarkdown}

vignettes/wcs-ssurgo.Rmd

@@ -2,7 +2,7 @@
 title: "Map Unit Key Grids and Thematic Maps of Soil Survey Geographic (SSURGO) Data"
 output: rmarkdown::html_vignette
 vignette: >
-  %\VignetteIndexEntry{Map Unit Key Grids and Thematic Maps of SSURGO Data}
+  %\VignetteIndexEntry{Map Unit Key Grids and Thematic Maps of Soil Survey Geographic (SSURGO) Data}
   %\VignetteEngine{knitr::rmarkdown}
   %\VignetteEncoding{UTF-8}
 ---