PEcAn.data.land::event_parquet_to_json for generating PEcAn event.json files from well-formatted event parquet files, with support for ensembles of events.soil2netcdf() no longer drops depth information for soils with only one layer. (#3785)
soil_params() where bulk density is not specified by the user now look up soil_bulk_density from the soil type (as always intended) instead of always reporting 1350 kg/m3 because of a flow control typo. (#3776)
Datasets
landiq_crop_mapping_codes dataset mapping LandIQ crop classification codes to human-readable crop names.bism_kc_by_crop dataset containing BISm crop coefficient schedules and stage timing references for use in ET estimation, including columns that map to LandIQ class and subclass.ca_n_application_rate dataset with recommended N application rates (g N/m2) for 33 California crops from CDFA-FREP and UC ANR sources.ca_compost_amendment dataset with C:N ratios, carbon, nitrogen, and PAN (g/m2) for 32 organic amendment materials.Functions
look_up_ca_n_rate() for looking up crop-specific N application rates by name (exact match first, partial match suggestions on miss).look_up_ca_compost_amendment() for looking up organic amendment properties by material name.to_co2e() for converting SOC change, CH4, and N2O to CO2-equivalent emissions using IPCC Global Warming Potential values.traits, used by match_pft() and match_species_id() only when no database connection is provided, is now suggested rather than required.validate_events_json() to use events schema v0.1.2 by default. Older versions are still accessible by setting, e.g., schema_version="0.1.1".doSNOW, dplR, httr, MCMCpack, mvtnorm, neonUtilities,
neonstore, PEcAn.benchmark, PEcAn.visualization, rjags, sirt, and
sp are now suggested rather than required. They are only needed for
specific optional functionality. (#3599)soilgrids_ic_process(), with helpers preprocess_soilgrids_data() and generate_soilgrids_ensemble(), generates soil carbon initial conditions from SoilGrids 250m data (#3508).clip_and_save_raster_file() subsets rasters to match a polygon of interest (#3537).look_up_fertilizer_component() contains typical carbon and nitrogen composition of common fertilizer types (#3559).events.json files. These contain information about management events (planting, harvest, irrigation, etc). The standard is defined in inst/events_schema_v0.1.0.json and event files can be validated against the schema with new function validate_events() (#3623, #3521).Read.IC.info.BADM now processes both single-site and multi-site settings, and uses more carbon pools (ROOT_BIOMASS, AG_BIOMASS, SOIL_STOCK, LIT_BIOMASS) if they are present (#3536).swfscMisc is no longer imported; it was formerly used in extract_NEON_veg() to compute distances and has been replaced by use of terra::distance() (#3552).extract_soil_gssurgo() now supports spatial grid sampling using new arguments grid_size and grid_spacing. Previously available argument radius has been removed (#3534).extract_soil_gssurgo() now reports an estimate of soil organic carbon stocks (#3534).machine from put_veg_module() (#3575).soilgrids_soilC_extract() (#3506).datapack is now optional. It is only used by dataone_download() (#3373).soilgrids_soilC_extract() no longer returns an empty dataframe when none of the queried locations are missing data. (#3409)settings$siteID no longer assume IDs are numericsoilgrids_soilC_extract retrieves soil C estimates with uncertainty from the ISRIC SoilGrids 250m data. (#3040, @Qianyuxuan)gSSURGO.Query() now always returns all the columns requested, even ones that are all NA. It also now always requires mukeys to be specified.gSSURGO.Query() and extract_soil_gssurgo() to work again after formatting changes in the underlying gSSURGO APIfind.land() has been removed. It is not used anywhere we know if, has apparently not been working for some time, and relied on the maptools package which is scheduled for retirement.PEcAn.data.atmosphere, notably by retrieving site latitude and longitude directly from PEcAn.DB::query.site instead of custom lookups (#3300, Abhinav Pandey).