updates

inst/WORDLIST

@@ -26,7 +26,6 @@ Input’
 Jonge
 LIM
 LIMfile
-LIMfiles
 LSEI
 Lau
 Lebreton
@@ -41,14 +40,14 @@ Modelling
 NA's
 NLNode
 NLNodes
+NLNode’
 NPP
 Niquil
 Nmin
 Oevelen
 Orignac
 Pacella
 Plummer
-RStudio
 Raftery
 Ravara
 Rodrigues
@@ -124,8 +123,8 @@ microphytobenthos
 modelling
 much’
 mulriple
+permissionto
 png
-pre
 prepack
 pvar
 quality’
@@ -134,13 +133,19 @@ raftery
 readxl
 reproducibility
 runmean
+sedPOC
+sedPOCNLNode’
+sedPOC’
+sedimented
 ssCheck
+susPOC
+susPOCNLNode’
+susPOC’
 tibble
 trophic
 uvar
 visualisation
 visualises
 visualistion
 xlsx
-xlsx’
 xsample

vignettes/autoLIMR_vignette.Rmd

@@ -112,7 +112,7 @@ To view the adjacency matrix data for all seasons, the example adjacency matrix
 
 ### `autoGen()`: write LIM declaration files into folders in working directory
 
-Once both workbooks have been populated, `autoGen()` uses data from both workbooks and translates the data into ready-to-use LIM declaration file formatted objects. Users can choose to manually write these to the computer hard drive, or can specify `force = TRUE` within the argument to give permissionto automatically write to the hard drive.
+Once both workbooks have been populated, `autoGen()` uses data from both workbooks and translates the data into ready-to-use LIM declaration file formatted objects. Users can choose to manually write these to the computer hard drive, or can specify `force = TRUE` within the argument to give permission to automatically write to the hard drive.
 
 The translation depends on three main `autoGen()` arguments: 1) whether respiration from living compartments to an external CO2 sink is included in the network (LOGICAL, default `respiration = TRUE`), 2) whether each compartment is living or non-living (character string or vector of inputs, default `NLNode = NULL`), and 3) whether each compartment sources its energy from outside the system boundary e.g., primary producers in ecological networks (character string or vector of inputs, default `primary_producer = NULL`).