From 6a86a4348c4bc484215f1d8b7d8a6a1080602dc4 Mon Sep 17 00:00:00 2001
From: Daniel Vedder <daniel.vedder@idiv.de>
Date: Tue, 29 Nov 2022 13:35:27 +0100
Subject: [PATCH] Wrote test.sh for development purposes
---
run.jl | 2 +-
src/analysis/analyse_nature.R | 4 ++--
src/nature/wolpertinger.jl | 2 +-
src/parameters.toml | 2 +-
test.sh | 11 +++++++++++
5 files changed, 16 insertions(+), 5 deletions(-)
create mode 100755 test.sh
diff --git a/run.jl b/run.jl
index 51bc232..4dbf6d2 100755
--- a/run.jl
+++ b/run.jl
@@ -7,4 +7,4 @@ using Pkg
Pkg.activate(".")
using Persephone
-simulate()
+@time simulate()
diff --git a/src/analysis/analyse_nature.R b/src/analysis/analyse_nature.R
index d3b9be8..4629aa9 100755
--- a/src/analysis/analyse_nature.R
+++ b/src/analysis/analyse_nature.R
@@ -12,7 +12,7 @@ library(terra)
autorun = TRUE ## automatically run all analyses?
-datadir = "results" ## "results" by default
+datadir = "test_results" ## "results" by default
popfile = "populations.csv"
indfile = "individuals.csv"
mapfile = "landcover_jena.tif"
@@ -26,7 +26,7 @@ populationTrends = function() {
mutate(Date = as.POSIXct(strptime(Date,format="%Y-%m-%d")))
ggplot(data=popdata, aes(x=Date, y=Abundance, color=Species)) +
geom_point() +
- geom_smooth() +
+ ##geom_smooth() +
scale_color_viridis_d() +
theme_bw()
ggsave(paste0(datadir, "/", population_output_file, ".pdf"), width=8, height=4)
diff --git a/src/nature/wolpertinger.jl b/src/nature/wolpertinger.jl
index f426ba8..f22abc6 100644
--- a/src/nature/wolpertinger.jl
+++ b/src/nature/wolpertinger.jl
@@ -47,5 +47,5 @@ newspecies("Wolpertinger",
updatewolpertinger!,
Dict("popdensity"=>1/10000,
"birthenergy"=>400,
- "fecundity"=>0.02,
+ "fecundity"=>0.01,
"maxspeed"=>5))
diff --git a/src/parameters.toml b/src/parameters.toml
index d0032e3..1f8a75b 100644
--- a/src/parameters.toml
+++ b/src/parameters.toml
@@ -15,7 +15,7 @@ loglevel = "debug" # verbosity level: "debug", "info", "quiet"
seed = 0 # seed value for the RNG (0 -> random value)
# dates to start and end the simulation
startdate = 2020-01-01
-enddate = 2020-01-31
+enddate = 2020-12-31
[farm]
diff --git a/test.sh b/test.sh
new file mode 100755
index 0000000..15fb6c9
--- /dev/null
+++ b/test.sh
@@ -0,0 +1,11 @@
+#!/bin/bash
+## A short shell script to test the current development version of Persephone.
+
+if [[ -d "test_results" ]]
+then
+ rm -r test_results
+fi
+
+./run.jl -o test_results -s 1
+
+src/analysis/analyse_nature.R
--
GitLab