diff --git a/src/disease_ecs_diagnostic.rs b/src/disease_ecs_diagnostic.rs
index 28ffbe5..d954b96 100644
--- a/src/disease_ecs_diagnostic.rs
+++ b/src/disease_ecs_diagnostic.rs
@@ -6,8 +6,10 @@ use epi_bevy::{
     sir_spread_model::{self, Infected, Susceptible},
 };
 
+
 /// Printing the disease states whenever invoked. These disease states corresponds
 /// to [DiseaseCompartments].
+#[allow(dead_code)]
 fn print_population_disease_states_at_app_exit(
     tick: Res<ScenarioTime>,
     query: Query<(&Infected, &Susceptible)>,
@@ -28,6 +30,7 @@ fn print_population_disease_states_at_app_exit(
 
 /// Print disease states if infected state every half a second;
 #[deprecated(note = "please use run criteria to handle when systems are run.")]
+#[allow(dead_code)]
 fn log_every_half_second(
     query: Query<(
         &FarmId,
@@ -50,6 +53,7 @@ fn log_every_half_second(
 }
 
 /// Print disease states if infected state has changed.
+#[allow(dead_code)]
 fn log_changes_in_infected(
     query: Query<
         (
diff --git a/src/main.rs b/src/main.rs
index 361dd06..d253333 100644
--- a/src/main.rs
+++ b/src/main.rs
@@ -50,8 +50,7 @@ use bevy::{
     log::LogPlugin,
 };
 
-use epi_bevy::between_herd_spread_model::print_between_herd_infection_events;
-use epi_bevy::cattle_population::{FarmId, HerdSize};
+use epi_bevy::cattle_population::FarmId;
 use epi_bevy::scenario_time::ScenarioTime;
 use epi_bevy::sir_spread_model::{
     DiseaseCompartments, DiseaseParameters as WithinHerdDiseaseParameters,
@@ -154,16 +153,15 @@ fn main() {
             //FIXME: this is currently unused
             max_repetitions: 2,
         })
-        // .insert_resource(WithinHerdDiseaseParameters::new(0.0013, 0.008333))
+        .insert_resource(WithinHerdDiseaseParameters::new(0.0013, 0.008333))
         // .insert_resource(WithinHerdDiseaseParameters::new(0.0013, 0.008333))
         //TODO: this block adds parameters, but what I'd ideally want is for the SceneConfiguration to add
         // them. So is there such a thing as a Bundle of Resources?
-        .insert_resource(WithinHerdDiseaseParameters::new(0.003, 0.00001))
+        // .insert_resource(WithinHerdDiseaseParameters::new(0.003, 0.00001))
         // .insert_resource(between_herd_spread_model::ContactRate::new(0.095))
         .insert_resource(between_herd_spread_model::ContactRate::new(Rate::new(10.).unwrap()))
-        
     .insert_resource(DetectionRate::new(
-        Rate::try_from(Probability::new(0.0031).unwrap()).unwrap(),
+        Rate::try_from(Probability::new(0.00031).unwrap()).unwrap(),
     ))
     .insert_resource(RemainingProportion::new(Probability::new(0.10).unwrap()))
         // .insert_resource(DetectionRatePerAnimal(Rate::try_from(Probability::new(0.5).unwrap()).unwrap()))
diff --git a/src/regulator_active_surveillance/tests.rs b/src/regulator_active_surveillance/tests.rs
index f43b668..cd98a70 100644
--- a/src/regulator_active_surveillance/tests.rs
+++ b/src/regulator_active_surveillance/tests.rs
@@ -1,5 +1,4 @@
 use rand::SeedableRng;
-
 use super::*;
 
 #[test]
diff --git a/src/repopulation_by_scaling.rs b/src/repopulation_by_scaling.rs
index b855cb3..2bd89be 100644
--- a/src/repopulation_by_scaling.rs
+++ b/src/repopulation_by_scaling.rs
@@ -20,7 +20,7 @@ use crate::{
 
 /// This is intermittently linked with the disease spread model on the within
 /// herd part and thus couldn't really be updated without some knowledge  
-
+#[allow(dead_code)]
 fn repopulate_rescale_disease_compartments(
     mut query: Query<(&mut Susceptible, &mut Infected, &mut Recovered, &HerdSize)>,
 ) {