public static void main(String[] args) {
        EntityManagerFactory emf = Persistence.createEntityManagerFactory(PERSISTENCE_UNIT);
        SessionFactoryImpl sessionFactory = null;
        try {
            Persistence.generateSchema(PERSISTENCE_UNIT, null);
        } finally {
            sessionFactory = emf.unwrap(SessionFactoryImpl.class);
            sessionFactory.getServiceRegistry().destroy();
        }
}

<?xml version="1.0" encoding="UTF-8"?>
<persistence version="2.1"
             xmlns="http://xmlns.jcp.org/xml/ns/persistence"
             xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
             xsi:schemaLocation="http://xmlns.jcp.org/xml/ns/persistence
             http://xmlns.jcp.org/xml/ns/persistence/persistence_2_1.xsd">
    <persistence-unit name="ddl-gen">
        <provider>org.hibernate.jpa.HibernatePersistenceProvider</provider>

        <class>***</class>
        <class>***</class>
        <class>***</class>

        <properties>


            <property name="javax.persistence.schema-generation.scripts.action" value="create"/>
            <property name="javax.persistence.schema-generation.scripts.create-target"
                      value="${project.basedir}/src/main/resources/META-INF/sql/init.sql"/>
            <property name="javax.persistence.jdbc.driver" value="org.h2.Driver"/>
            <property name="javax.persistence.jdbc.url" value="jdbc:h2:tcp://***/~/***"/>
            <property name="hibernate.connection.username" value="sa"/>
            <property name="hibernate.connection.password" value=""/>



        </properties>

    </persistence-unit>

</persistence>

16:11:41.062 [main] DEBUG org.hibernate.internal.SessionFactoryRegistry - Not binding SessionFactory to JNDI, no JNDI name configured
16:11:41.062 [main] DEBUG org.hibernate.jpa.internal.schemagen.JpaSchemaGenerator - wasInitiallyAutoCommit=false
16:11:41.062 [main] INFO org.hibernate.dialect.Dialect - HHH000400: Using dialect: org.hibernate.dialect.H2Dialect
16:11:41.066 [main] DEBUG org.hibernate.service.internal.AbstractServiceRegistryImpl - Implicitly destroying ServiceRegistry on de-registration of all child ServiceRegistries
16:11:41.066 [main] INFO org.hibernate.orm.connections - HHH10001008: Cleaning up connection pool [jdbc:h2:tcp://***/~/***]
16:11:41.067 [main] DEBUG org.hibernate.boot.registry.internal.BootstrapServiceRegistryImpl - Implicitly destroying Boot-strap registry on de-registration of all child ServiceRegistries
16:12:10.932 [pool-2-thread-1] DEBUG org.hibernate.engine.jdbc.connections.internal.DriverManagerConnectionProviderImpl - Connection pool now considered primed; min-size will be maintained

public static void main(String[] args) {
    Persistence.generateSchema(PERSISTENCE_UNIT, null);
}

16:07:26.890 [main] DEBUG org.hibernate.internal.SessionFactoryRegistry - Not binding SessionFactory to JNDI, no JNDI name configured
16:07:26.895 [main] DEBUG org.hibernate.jpa.internal.schemagen.JpaSchemaGenerator - wasInitiallyAutoCommit=false
16:07:26.896 [main] INFO org.hibernate.dialect.Dialect - HHH000400: Using dialect: org.hibernate.dialect.H2Dialect
16:07:54.274 [pool-1-thread-1] DEBUG org.hibernate.engine.jdbc.connections.internal.DriverManagerConnectionProviderImpl - Connection pool now considered primed; min-size will be maintained