Adds conda env needed for mosquito-alert-model-monitor to work

Author: JohnPalmer

priority_municipal_data.sh

@@ -24,6 +24,10 @@
 module load LibTIFF/4.6.0-GCCcore-13.3.0
 module load R/4.4.2-gfbf-2024a
 module load cURL/8.7.1-GCCcore-13.3.0
+module load Miniconda3/24.7.1-0
+
+# Activate conda environment
+conda activate mosquito-alert-monitor
 
 # Load SSH agent since this is no longer done by default on the cluster
 eval "$(ssh-agent -s)"

priority_municipal_forecast.sh

@@ -15,6 +15,10 @@
 module load LibTIFF/4.6.0-GCCcore-13.3.0
 module load R/4.4.2-gfbf-2024a
 module load cURL/8.7.1-GCCcore-13.3.0
+module load Miniconda3/24.7.1-0
+
+# Activate conda environment
+conda activate mosquito-alert-monitor
 
 # Load SSH agent since this is no longer done by default on the cluster
 eval "$(ssh-agent -s)"

run_priority_sequence.sh

@@ -15,6 +15,10 @@
 module load LibTIFF/4.6.0-GCCcore-13.3.0
 module load R/4.4.2-gfbf-2024a
 module load cURL/8.7.1-GCCcore-13.3.0
+module load Miniconda3/24.7.1-0
+
+# Activate conda environment
+conda activate mosquito-alert-monitor
 
 # Load SSH agent since this is no longer done by default on the cluster
 eval "$(ssh-agent -s)"

scripts/test_dashboard_integration.sh

@@ -1,8 +1,5 @@
 #!/bin/bash
 
-# Load required modules
-module load LibTIFF/4.6.0-GCCcore-13.3.0
-
 # Load SSH agent since this is no longer done by default on the cluster
 eval "$(ssh-agent -s)"
 ssh-add ~/.ssh/id_rsa
@@ -17,6 +14,14 @@ export LC_PAPER=C.UTF-8
 export LC_MEASUREMENT=C.UTF-8
 export LANG=C.UTF-8
 
+# Load required modules
+module load LibTIFF/4.6.0-GCCcore-13.3.0
+module load Miniconda3/24.7.1-0
+
+# Activate conda environment
+conda activate mosquito-alert-monitor
+
+
 # test_dashboard_integration.sh
 # -----------------------------
 # Test script to verify dashboard integration is working

scripts/update_weather_status.sh

@@ -1,8 +1,5 @@
 #!/bin/bash
 
-# Load required modules
-module load LibTIFF/4.6.0-GCCcore-13.3.0
-
 # Load SSH agent since this is no longer done by default on the cluster
 eval "$(ssh-agent -s)"
 ssh-add ~/.ssh/id_rsa
@@ -17,6 +14,14 @@ export LC_PAPER=C.UTF-8
 export LC_MEASUREMENT=C.UTF-8
 export LANG=C.UTF-8
 
+# Load required modules
+module load LibTIFF/4.6.0-GCCcore-13.3.0
+module load Miniconda3/24.7.1-0
+
+# Activate conda environment
+conda activate mosquito-alert-monitor
+
+
 # scripts/update_weather_status.sh
 # ---------------------------------
 # Integration script for mosquito-alert-model-monitor dashboard

update_historical_weather.sh

@@ -15,6 +15,10 @@
 module load LibTIFF/4.6.0-GCCcore-13.3.0
 module load R/4.4.2-gfbf-2024a
 module load cURL/8.7.1-GCCcore-13.3.0
+module load Miniconda3/24.7.1-0
+
+# Activate conda environment
+conda activate mosquito-alert-monitor
 
 # Load SSH agent since this is no longer done by default on the cluster
 eval "$(ssh-agent -s)"

update_weather.sh

@@ -16,6 +16,10 @@ module load LibTIFF/4.6.0-GCCcore-13.3.0
 module load R/4.4.2-gfbf-2024a
 module load cURL/8.7.1-GCCcore-13.3.0
 module load openssl/1.1.1
+module load Miniconda3/24.7.1-0
+
+# Activate conda environment
+conda activate mosquito-alert-monitor
 
 # Load SSH agent since this is no longer done by default on the cluster
 eval "$(ssh-agent -s)"