Closed brownag closed 8 months ago
Now gives more complete results when parse_family() is called on a heterogeneous vector of taxonomic class names, some of which may be taxa above family.
parse_family()
suppressPackageStartupMessages(library(soilDB)) library(SoilTaxonomy) x <- data.frame( taxonname = c("Alberti", "Aquents", "Lithic Xeric Torriorthents", "Stagy Family", "Haplodurids"), taxonkind = c("series", "taxon above family", "taxon above family", "family", "taxon above family"), taxclname = c( "Clayey, smectitic, thermic, shallow Vertic Rhodoxeralfs", # Full family name "Aquents", # Taxon above subgroup "Lithic Xeric Torriorthents", # Subgroup "Coarse-loamy, mixed, mesic Duric Haploxerolls", # Fill family name (missing activity) "Mixed, superactive, thermic Haplodurids" # Taxon above family (family class + great group) )) parse_family(x$taxclname) #> family #> 1 Clayey, smectitic, thermic, shallow Vertic Rhodoxeralfs #> 2 <NA> #> 3 <NA> #> 4 Coarse-loamy, mixed, mesic Duric Haploxerolls #> 5 Mixed, superactive, thermic Haplodurids #> taxclname #> 1 Clayey, smectitic, thermic, shallow Vertic Rhodoxeralfs #> 2 Aquents #> 3 Lithic Xeric Torriorthents #> 4 Coarse-loamy, mixed, mesic Duric Haploxerolls #> 5 Mixed, superactive, thermic Haplodurids #> taxonname subgroup_code code #> 1 vertic rhodoxeralfs JDEB JDEB #> 2 aquents <NA> LB #> 3 lithic xeric torriorthents LECB LECB #> 4 duric haploxerolls IFFZ IFFZ #> 5 haplodurids <NA> GCC #> class_string classes_split taxpartsize taxpartsizemod #> 1 Clayey, smectitic, thermic, shallow Clayey, .... clayey NA #> 2 <NA> NA #> 3 <NA> NA #> 4 Coarse-loamy, mixed, mesic Coarse-l.... coarse-loamy NA #> 5 Mixed, superactive, thermic Mixed, s.... <NA> NA #> taxminalogy taxceactcl taxreaction taxtempcl taxfamhahatmatcl taxfamother #> 1 smectitic <NA> NA thermic NA shallow #> 2 <NA> <NA> NA <NA> NA <NA> #> 3 <NA> <NA> NA <NA> NA <NA> #> 4 mixed <NA> NA mesic NA <NA> #> 5 mixed superactive NA thermic NA <NA> #> taxsubgrp taxgrtgroup taxsuborder taxorder #> 1 Vertic Rhodoxeralfs Rhodoxeralfs Xeralfs Alfisols #> 2 <NA> <NA> Aquents Entisols #> 3 Lithic Xeric Torriorthents Torriorthents Orthents Entisols #> 4 Duric Haploxerolls Haploxerolls Xerolls Mollisols #> 5 <NA> Haplodurids Durids Aridisols
Now gives more complete results when
parse_family()
is called on a heterogeneous vector of taxonomic class names, some of which may be taxa above family.