Added precompilation and the `visualise` setting

Project.toml

 name = "Persefone"
 uuid = "039acd1d-2a07-4b33-b082-83a1ff0fd136"
 authors = ["Daniel Vedder <daniel.vedder@idiv.de>"]
-version = "0.3.1"
+version = "0.3.2"
 
 [deps]
 Agents = "46ada45e-f475-11e8-01d0-f70cc89e6671"

src/Persefone.jl

@@ -24,7 +24,7 @@ using
     Distributed,
     FileIO,
     #FIXME an upstream update broke GeoArrays for TableTransforms > 1.15.0
-    GeoArrays, #XXX this is a big dependency - can we get rid of it?
+    GeoArrays,
     Logging,
     LoggingExtras,
     Random,
@@ -114,7 +114,8 @@ include("nature/species/wyvern.jl")
 
 include("core/simulation.jl") #this must be last
 
-#XXX precompile? -> PrecompileTools doesn't really give an improvement
-# https://julialang.org/blog/2021/01/precompile_tutorial/
+# precompile important functions
+precompile(initialise, (String,Int))
+precompile(stepsimulation!, (AgentBasedModel,))
 
 end

src/analysis/makieplots.jl

@@ -22,7 +22,10 @@ function visualisemap(model::AgentBasedModel,date=nothing,landcover=nothing)
     ax.aspect = DataAspect()
     # check if there are individuals and plot them
     inds = model.datatables["individuals"]
-    iszero(size(inds)[1]) && return f
+    if iszero(size(inds)[1])
+        @debug "No individual data to map"
+        return f
+    end
     isnothing(date) && (date = inds.Date[end])
     for s in unique(inds.Species)
         points = @select!(@subset(inds, :Species .== s, :Date .== date),

src/core/simulation.jl

@@ -152,7 +152,7 @@ function finalise!(model::AgentBasedModel)
     with_logger(model.logger) do
         @info "Simulated $(model.date-@param(core.startdate))."
         @info "Simulation run completed at $(Dates.now()),\nwrote output to $(@param(core.outdir))."
-        visualiseoutput(model)
+        @param(core.visualise) && visualiseoutput(model)
         model
     end
 end

src/parameters.toml

@@ -11,6 +11,7 @@ configfile = "src/parameters.toml" # location of the configuration file
 outdir = "results" # location and name of the output folder
 overwrite = "ask" # overwrite the output directory? (true/false/"ask")
 csvoutput = true # save collected data in CSV files
+visualise = true # generate result graphs
 storedata = true # keep collected data in memory
 loglevel = "debug" # verbosity level: "debug", "info", "warn"
 processors = 2 # number of processors to use on parallel runs