db: Add mysql support for birdnet_observation database

This commit is contained in:
Samuel Ortion 2022-08-24 14:12:42 +02:00
parent 7a175e7f0a
commit 97c22977d0
7 changed files with 130 additions and 12 deletions

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@ -19,6 +19,4 @@ PYTHON_VENV="./.venv/birdnet-stream"
WORKDIR="/home/$USER/BirdNET-stream"
# Database location
DATABASE="./var/db.sqlite"
DAEMON_USER="birdnet"
DAEMON_PASSWORD="secret"
# DATABASE="mysql://birdnet:secret@localhost:3306/birdnet_observations" # uncomment and change 'secret' if you want to use a mariadb (mysql) database instea of sqlite

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@ -17,5 +17,16 @@ if [ -z "$DATABASE" ]; then
DATABASE="./var/db.sqlite"
fi
# Create database according to schema in structure.sql
sqlite3 "$DATABASE" < ./daemon/database/structure.sql
if [[ $DATABASE = "mysql://"* ]]; then
# Split mysql uri into user, password, host, port, and database
MYSQL_ADDRESS=$(echo "$DATABASE" | sed 's/mysql:\/\///g')
MYSQL_CREDENTIALS=$(echo "$MYSQL_ADDRESS" | cut -d@ -f1)
MYSQL_USER=$(echo "$MYSQL_CREDENTIALS" | cut -d: -f1)
MYSQL_PASSWORD=$(echo "$MYSQL_CREDENTIALS" | cut -d: -f2)
MYSQL_HOST=$(echo "$MYSQL_ADDRESS" | cut -d@ -f2 | cut -d: -f1)
MYSQL_PORT=$(echo "$MYSQL_ADDRESS" | cut -d@ -f2 | cut -d: -f2 | cut -d/ -f1)
MYSQL_DATABASE=$(echo "$MYSQL_ADDRESS" | cut -d/ -f2)
mysql -u$MYSQL_USER -p$MYSQL_PASSWORD -h$MYSQL_HOST -P$MYSQL_PORT -D$MYSQL_DATABASE < ./daemon/database/structure-mysql.sql
else
sqlite3 $DATABASE < ./daemon/database/structure-sqlite.sql
fi

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@ -8,10 +8,30 @@ source ./config/birdnet.conf
# Create database in case it was not created yet
./daemon/database/scripts/create.sh
DATABASE=${DATABASE:-"./var/db.sqlite"}
# Check if database location is specified
if [ -z "$DATABASE" ]; then
echo "DATABASE location not specified"
echo "Defaults to ./var/db.sqlite"
DATABASE="./var/db.sqlite"
fi
query() {
sqlite3 -cmd ".timeout 1000" $DATABASE "$1"
local stmt
stmt="$1"
if [[ $DATABASE = "mysql://"* ]]; then
# Split mysql uri into user, password, host, port, and database
MYSQL_ADDRESS=$(echo "$DATABASE" | sed 's/mysql:\/\///g')
MYSQL_CREDENTIALS=$(echo "$MYSQL_ADDRESS" | cut -d@ -f1)
MYSQL_USER=$(echo "$MYSQL_CREDENTIALS" | cut -d: -f1)
MYSQL_PASSWORD=$(echo "$MYSQL_CREDENTIALS" | cut -d: -f2)
MYSQL_HOST=$(echo "$MYSQL_ADDRESS" | cut -d@ -f2 | cut -d: -f1)
MYSQL_PORT=$(echo "$MYSQL_ADDRESS" | cut -d@ -f2 | cut -d: -f2 | cut -d/ -f1)
MYSQL_DATABASE=$(echo "$MYSQL_ADDRESS" | cut -d/ -f2)
mysql -u$MYSQL_USER -p$MYSQL_PASSWORD -h$MYSQL_HOST -P$MYSQL_PORT -D$MYSQL_DATABASE -e "$stmt"
else
sqlite3 -cmd ".timeout 1000" "$DATABASE" "$stmt"
fi
}
get_location_id() {
@ -37,4 +57,4 @@ insert_observation() {
# Check if the observation already exists in the database
observation_exists() {
query "SELECT EXISTS(SELECT observation_id FROM observation WHERE audio_file='$1' AND start='$2' AND end='$3' AND taxon_id='$4' AND location_id='$5')"
}
}

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@ -0,0 +1,31 @@
/** Database structure for BirdNET-stream SQLite*/
/** Taxon table */
CREATE TABLE IF NOT EXISTS taxon (
taxon_id INTEGER PRIMARY KEY NOT NULL AUTO_INCREMENT,
scientific_name TEXT NOT NULL,
common_name TEXT NOT NULL
);
/** Location table */
CREATE TABLE IF NOT EXISTS location (
location_id INTEGER PRIMARY KEY NOT NULL AUTO_INCREMENT,
latitude REAL NOT NULL,
longitude REAL NOT NULL
);
/** Observation table */
CREATE TABLE IF NOT EXISTS observation (
`observation_id` INTEGER PRIMARY KEY NOT NULL AUTO_INCREMENT,
`audio_file` TEXT NOT NULL,
`start` REAL NOT NULL,
`end` REAL NOT NULL,
`taxon_id` INTEGER NOT NULL,
`location_id` INTEGER NOT NULL,
`date` TEXT NOT NULL,
`notes` TEXT,
`confidence` REAL NOT NULL,
`verified` BOOLEAN DEFAULT 0 CHECK (`verified` IN (0, 1)),
FOREIGN KEY(taxon_id) REFERENCES taxon(taxon_id),
FOREIGN KEY(location_id) REFERENCES location(location_id)
);

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@ -2,21 +2,21 @@
/** Taxon table */
CREATE TABLE IF NOT EXISTS taxon (
taxon_id INTEGER PRIMARY KEY,
taxon_id INTEGER PRIMARY KEY NOT NULL,
scientific_name TEXT NOT NULL,
common_name TEXT NOT NULL
);
/** Location table */
CREATE TABLE IF NOT EXISTS location (
location_id INTEGER PRIMARY KEY,
location_id INTEGER PRIMARY KEY NOT NULL,
latitude REAL NOT NULL,
longitude REAL NOT NULL
);
/** Observation table */
CREATE TABLE IF NOT EXISTS observation (
`observation_id` INTEGER PRIMARY KEY,
`observation_id` INTEGER PRIMARY KEY NOT NULL,
`audio_file` TEXT NOT NULL,
`start` REAL NOT NULL,
`end` REAL NOT NULL,
@ -25,7 +25,7 @@ CREATE TABLE IF NOT EXISTS observation (
`date` TEXT NOT NULL,
`notes` TEXT,
`confidence` REAL NOT NULL,
`verified` BOOLEAN NOT NULL CHECK (`verified` IN (0, 1)) DEFAULT 0,
`verified` BOOLEAN DEFAULT 0 CHECK (`verified` IN (0, 1)),
FOREIGN KEY(taxon_id) REFERENCES taxon(taxon_id),
FOREIGN KEY(location_id) REFERENCES location(location_id)
);

58
docs/DATABASE.md Normal file
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@ -0,0 +1,58 @@
# Setting up the database
There is two database managment systems available: sqlite or mariadb (mysql).
## sqlite
To use sqlite, simply install the sqlite3 package, if it is not already installed on the machine that runs BirdNET-stream.
```bash
sudo apt-get install sqlite3
```
Then fill `config/birdnet.conf` with the proper DATABASE value (you may use any database location):
```bash
DATABASE="./var/db.sqlite"
```
## mariadb
To use mariadb, you need to install the mariadb-server package.
```bash
sudo apt-get install mariadb-server
```
Then, populate the `config/birdnet.conf` file with the proper DATABASE uri:
```bash
DATABASE="mysql://user:password@localhost/birdnet_observations"
```
## Symfony configuration
For both method you need to adapt the file `www/.env.local` to suit your new configuration.
```bash
cd www
# If .env.local does not exists:
cp .env.local.example .env.local
```
```text
# .env.local
# for sqlite (example)
DATABASE_DEFAULT_URL=sqlite:///%kernel.project_dir%/./var/db-default.sqlite
DATABASE_OBSERVATIONS_URL=sqlite:///%kernel.project_dir%/../var/db.sqlite
# for mariadb (example)
DATABASE_DEFAULT_URL=mysql://user:password@localhost/birdnet_default
DATABASE_OBSERVATIONS_URL=mysql://user:password@localhost/birdnet_observations
```
## PHP modules
For symfony to work, make sure you have the required modules according to each method:
- pdo_sqlite
- pdo_mysql