http://slides.jeremyherve.com/install-php-jetpack/

install.php

<?php

// We'll overwrite the default wp_install_defaults function, found in wp-admin/includes/upgrade.php
function wp_install_defaults( $user_id ) {
	global $wpdb, $wp_rewrite, $table_prefix;

	/**
	 * Set a site title.
	 */
	update_option( 'blogname', 'My Great Test blog' );

	/**
	 * Set a site description.
	 */
	update_option( 'blogdescription', 'A site description' );

	/**
	 * Set a default category, "News".
	 */
	$cat_name = __( 'News' );
	$cat_slug = sanitize_title( _x( 'News', 'Default category slug' ) );

	if ( global_terms_enabled() ) {
		$cat_id = $wpdb->get_var( $wpdb->prepare( "SELECT cat_ID FROM { $wpdb->sitecategories } WHERE category_nicename = %s", $cat_slug ) );
		if ( $cat_id == null ) {
			$wpdb->insert( $wpdb->sitecategories, array(
				'cat_ID' => 0,
				'cat_name' => $cat_name,
				'category_nicename' => $cat_slug,
				'last_updated' => current_time('mysql', true)
			) );
			$cat_id = $wpdb->insert_id;
		}
		update_option(  'default_category', $cat_id  );
	} else {
		$cat_id = 1;
	}

	$wpdb->insert( $wpdb->terms, array(
		'term_id'     => $cat_id,
		'name'        => $cat_name,
		'slug'        => $cat_slug,
		'term_group'  => 0
	) );
	$wpdb->insert( $wpdb->term_taxonomy, array(
		'term_id'     => $cat_id,
		'taxonomy'    => 'category',
		'description' => '',
		'parent'      => 0,
		'count'       => 1
	) );
	$cat_tt_id = $wpdb->insert_id;

	/**
	 * Set Timezone
	 */
	$timezone = "Europe/Bucharest";
	update_option( 'timezone_string', $timezone );

	// Start the week on Monday
	update_option( 'start_of_week', 1 );

	/**
	 * Update Permalinks and use post name only
	 */
	update_option( 'selection','custom' );
	update_option( 'permalink_structure','/%postname%/' );
	$wp_rewrite->init();
	$wp_rewrite->flush_rules();

	/**
	 * Create Self as Admin User.
	 */
	$username = 'jeherve';
	$userdata = array(
		'user_login'      => $username,
		'user_pass'       => wp_generate_password(),
		'user_email'      => 'jeremy@jeremy.hu',
		'first_name'      => 'Jeremy',
		'last_name'       => 'Herve',
		'nickname'        => 'Jeremy',
		'display_name'    => 'Jeremy',
		'user_url'        => 'http://jeremy.hu/',
		'role'            => 'administrator'
	);

	$self_id = username_exists( $username );

	if ( ! $self_id ) {
		$self_id = wp_insert_user( $userdata );
		update_user_option( $self_id, 'default_password_nag', true, true );
	}

	// Delete the default post
	wp_delete_post( 1, true );

	/**
	 * Create a new contact page
	 */
	// First post
	$now = current_time( 'mysql' );
	$now_gmt = current_time( 'mysql', 1 );
	$first_post_guid = get_option( 'home' ) . '/?p=1';

	if ( is_multisite() ) {
		$first_post = get_site_option( 'first_post' );

		if ( empty( $first_post ) )
			$first_post = __( "[contact-form][contact-field label='Name' type='name' required='1'/][contact-field label='Email' type='email' required='1'/][contact-field label='Website' type='url'/][contact-field label='Comment' type='textarea' required='1'/][/contact-form]" );

		$first_post = str_replace( "SITE_URL", esc_url( network_home_url() ), $first_post );
		$first_post = str_replace( "SITE_NAME", get_current_site()->site_name, $first_post );
	} else {
		$first_post = __("[contact-form][contact-field label='Name' type='name' required='1'/][contact-field label='Email' type='email' required='1'/][contact-field label='Website' type='url'/][contact-field label='Comment' type='textarea' required='1'/][/contact-form]");
	}

	$wpdb->insert( $wpdb->posts, array(
								'post_author' => $user_id,
								'post_date' => $now,
								'post_date_gmt' => $now_gmt,
								'post_content' => $first_post,
								'post_excerpt' => '',
								'post_title' => __('Contact Us'),
								/* translators: Default post slug */
								'post_name' => sanitize_title( _x('contact', 'Default post slug') ),
								'post_type' => 'page',
								'post_modified' => $now,
								'post_modified_gmt' => $now_gmt,
								'guid' => $first_post_guid,
								'comment_count' => 1,
								'to_ping' => '',
								'pinged' => '',
								'post_content_filtered' => ''
								));
	$wpdb->insert( $wpdb->term_relationships, array('term_taxonomy_id' => $cat_tt_id, 'object_id' => 1) );

	/**
	 * Switch to our favorite theme, Goran, a child theme of Edin.
	 *
	 * First parameter is the template, second is the stylesheet.
	 */
	switch_theme( 'edin', 'goran' );

	/**
	 * Enable your favourite plugins.
	 */
	require_once( ABSPATH . 'wp-admin/includes/plugin.php' );

	// Your plugin list. These files should be found in your Plugins directory. You could store them as Git submodules for example.
	$plugin_list = array(
		'akismet/akismet.php',
		'jeherve-func/jeherve-func.php',
		'jetpack/jetpack.php',
		'vaultpress/vaultpress.php'
	);

	// Enable each one of them
	foreach( $plugin_list as $plugin ) {
		$plugin_dir = WP_PLUGIN_DIR . "/{$plugin}";
		if ( file_exists( $plugin_dir ) && !is_plugin_active( $plugin ) ) {
			activate_plugin( $plugin );
		}
	}
}