Add runnable script and virtualenv

PSILARTEMP.py

@@ -25,9 +25,9 @@ from jinja2 import Environment, FileSystemLoader
 
 load_dotenv()
 
-weatherdata_path="in/"
-tmp_path="tmp/"
-out_path="out/"
+weatherdata_path = os.getenv("WEATHER_DATA_DIR")
+tmp_path = "tmp/"
+out_path = os.getenv("DATA_DIR")
 
 # TODO: Make this truly independent of time zones/Norwegian conditions?
 utc_offset = "+02:00"

requirements.txt

+Jinja2
+netCDF4
+pytz
+python-dotenv
\ No newline at end of file

run_PSILARTEMP.sh

+#!/bin/bash
+
+#    Copyright (C) 2023 NIBIO <http://www.nibio.no/>. 
+#
+#    This program is free software: you can redistribute it and/or modify
+#    it under the terms of the GNU Affero General Public License as
+#    published by the Free Software Foundation, either version 3 of the
+#    License, or (at your option) any later version.
+#
+#    This program is distributed in the hope that it will be useful,
+#    but WITHOUT ANY WARRANTY; without even the implied warranty of
+#    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+#    GNU Affero General Public License for more details.
+#
+#    You should have received a copy of the GNU Affero General Public License
+#    along with this program.  If not, see <https://www.gnu.org/licenses/>.
+
+# Configures environment and logging before running the model
+# @author: Tor-Einar Skog <tor-einar.skog@nibio.no>
+
+
+
+# First: Test that we have CDO and GDAL installed
+if ! command -v cdo &> /dev/null
+then
+    echo "ERROR: CDO could not be found. Exiting."
+    exit
+fi
+
+if ! command -v gdal_merge.py &> /dev/null
+then
+    echo "ERROR: GDAL is either not installed, or not built with Python support. Exiting."
+    exit
+fi
+
+# Defines HOME_DIR
+source .env
+
+# Check for HOME_DIR
+if [ -z "${HOME_DIR}" ]
+then
+    echo "ERROR: \$HOME_DIR is not set. Please declare it in an .env file"
+    exit
+fi
+
+# Paths to scripts and requirements
+APP_PATH=${HOME_DIR}PSILARTEMP/
+LOG_FILE=${APP_PATH}log/PSILARTEMP.log
+REQUIREMENTS=${APP_PATH}requirements.txt
+
+cd $APP_PATH
+
+# Create and activate the virtual environment
+python3 -m venv .venv
+. .venv/bin/activate
+python3 -m pip install --upgrade pip
+pip install -r $REQUIREMENTS
+
+# Run the model
+echo "==== `date`: Running model" &>> "$LOG_FILE"
+python3 $APP_PATH/PSILARTEMP.py &>> "$LOG_FILE"
+echo "==== `date`: DONE running model" &>> "$LOG_FILE"
+
+# Deactivate the virtual environment
+deactivate