diff --git a/scripts/upgrade/sql/13.0.0/mysql/seafile.sql b/scripts/upgrade/sql/13.0.0/mysql/seafile.sql
new file mode 100644
index 0000000000..882a7ab0b0
--- /dev/null
+++ b/scripts/upgrade/sql/13.0.0/mysql/seafile.sql
@@ -0,0 +1,3 @@
+ALTER TABLE EmailUser ADD COLUMN `is_department_owner` BOOL NOT NULL DEFAULT 0;
+CREATE INDEX EmailUser_is_active on EmailUser(is_active);
+CREATE INDEX EmailUser_is_department_owenr on EmailUser(is_department_owner);
diff --git a/scripts/upgrade/sql/13.0.0/mysql/seahub.sql b/scripts/upgrade/sql/13.0.0/mysql/seahub.sql
new file mode 100644
index 0000000000..147f7b3f25
--- /dev/null
+++ b/scripts/upgrade/sql/13.0.0/mysql/seahub.sql
@@ -0,0 +1,46 @@
+CREATE TABLE IF NOT EXISTS `repo_extra_config` (
+  `id` int(11) NOT NULL AUTO_INCREMENT,
+  `repo_id` varchar(36) NOT NULL,
+  `config_type` varchar(50) NOT NULL,
+  `config_details` longtext DEFAULT NULL,
+  PRIMARY KEY (`id`),
+  KEY `ix_repo_extra_repo_id` (`repo_id`),
+  UNIQUE KEY `ix_repo_extra_repo_idconfig_type` (`repo_id`, `config_type`)
+) ENGINE=InnoDB DEFAULT CHARSET=utf8mb4 COLLATE=utf8mb4_general_ci;
+
+CREATE TABLE IF NOT EXISTS `RepoTransfer` (
+  `id` int(11) NOT NULL AUTO_INCREMENT,
+  `repo_id` varchar(36) NOT NULL,
+  `org_id` int(11) NOT NULL,
+  `from_user` varchar(255) NOT NULL,
+  `to` varchar(255) NOT NULL,
+  `timestamp` datetime NOT NULL,
+  `operator` varchar(255) NOT NULL,
+  PRIMARY KEY (`id`),
+  KEY `idx_file_transfer_org_id` (`org_id`),
+  KEY `idx_file_transfer_timestamp` (`timestamp`)
+) ENGINE=InnoDB DEFAULT CHARSET=utf8mb4 COLLATE=utf8mb4_general_ci;
+
+CREATE TABLE IF NOT EXISTS `group_invite_link` (
+  `id` int(11) NOT NULL AUTO_INCREMENT,
+  `token` varchar(40) NOT NULL,
+  `group_id` int(11) NOT NULL,
+  `created_at` datetime(6) NOT NULL,
+  `created_by` varchar(255) NOT NULL,
+  PRIMARY KEY (`id`),
+  KEY `group_invite_link_group_id` (`group_id`),
+  KEY `group_invite_link_token` (`token`)
+) ENGINE=InnoDB DEFAULT CHARSET=utf8mb4 COLLATE=utf8mb4_general_ci;
+
+CREATE TABLE IF NOT EXISTS `org_last_active_time` (
+  `id` int(11) NOT NULL AUTO_INCREMENT,
+  `org_id` int(11) NOT NULL,
+  `timestamp` datetime(6) NOT NULL,
+  PRIMARY KEY (`id`),
+  UNIQUE KEY `org_id` (`org_id`),
+  KEY `ix_org_last_active_time_org_id` (`org_id`)
+) ENGINE=InnoDB DEFAULT CHARSET=utf8mb4 COLLATE=utf8mb4_general_ci;
+
+ALTER TABLE `sdoc_notification` ADD INDEX `idx_user_seen` (`username`, `seen`);
+
+ALTER TABLE organizations_orgsettings ADD COLUMN `is_active` tinyint(1) NOT NULL DEFAULT 1;
diff --git a/scripts/upgrade/upgrade_12.0_13.0.sh b/scripts/upgrade/upgrade_12.0_13.0.sh
new file mode 100755
index 0000000000..4c114c9b53
--- /dev/null
+++ b/scripts/upgrade/upgrade_12.0_13.0.sh
@@ -0,0 +1,212 @@
+#!/bin/bash
+
+SCRIPT=$(readlink -f "$0") # haiwen/seafile-server-1.3.0/upgrade/upgrade_xx_xx.sh
+UPGRADE_DIR=$(dirname "$SCRIPT") # haiwen/seafile-server-1.3.0/upgrade/
+INSTALLPATH=$(dirname "$UPGRADE_DIR") # haiwen/seafile-server-1.3.0/
+TOPDIR=$(dirname "${INSTALLPATH}") # haiwen/
+default_ccnet_conf_dir=${TOPDIR}/ccnet
+default_conf_dir=${TOPDIR}/conf
+default_pids_dir=${TOPDIR}/pids
+default_logs_dir=${TOPDIR}/logs
+default_seafile_data_dir=${TOPDIR}/seafile-data
+seafile_server_symlink=${TOPDIR}/seafile-server-latest
+seahub_data_dir=${TOPDIR}/seahub-data
+
+manage_py=${INSTALLPATH}/seahub/manage.py
+
+export CCNET_CONF_DIR=${default_ccnet_conf_dir}
+export SEAFILE_CONF_DIR=${default_seafile_data_dir}
+export SEAFILE_CENTRAL_CONF_DIR=${default_conf_dir}
+export PYTHONPATH=${INSTALLPATH}/seafile/lib/python3/site-packages:${INSTALLPATH}/seafile/lib64/python3/site-packages:${INSTALLPATH}/seahub:${INSTALLPATH}/seahub/thirdpart:$PYTHONPATH
+export SEAFILE_LD_LIBRARY_PATH=${INSTALLPATH}/seafile/lib/:${INSTALLPATH}/seafile/lib64:${LD_LIBRARY_PATH}
+
+prev_version=12.0
+current_version=13.0
+
+echo
+echo "-------------------------------------------------------------"
+echo "This script would upgrade your seafile server from ${prev_version} to ${current_version}"
+echo "Press [ENTER] to contiune"
+echo "-------------------------------------------------------------"
+echo
+read dummy
+
+function check_python_executable() {
+    if [[ "$PYTHON" != "" && -x $PYTHON ]]; then
+        return 0
+    fi
+
+    if which python3 2>/dev/null 1>&2; then
+        PYTHON=python3
+    elif !(python --version 2>&1 | grep "3\.[0-9]\.[0-9]") 2>/dev/null 1>&2; then
+        echo
+        echo "The current version of python is not 3.x.x, please use Python 3.x.x ."
+        echo
+        exit 1
+    else
+        PYTHON="python"$(python --version | cut -b 8-20)
+        if !which $PYTHON 2>/dev/null 1>&2; then
+            echo
+            echo "Can't find a python executable of $PYTHON in PATH"
+            echo "Install $PYTHON before continue."
+            echo "Or if you installed it in a non-standard PATH, set the PYTHON enviroment variable to it"
+            echo
+            exit 1
+        fi
+    fi
+}
+
+function check_seafile_data_dir () {
+    if [[ ! -d ${default_seafile_data_dir} ]]; then
+        echo "Your seafile server data directory \"${default_seafile_data_dir}\" is invalid or doesn't exits."
+        echo "Please check it first, or create this directory yourself."
+        echo ""
+        exit 1;
+    fi
+}
+
+function ensure_server_not_running() {
+    # test whether seafile server has been stopped.
+    if pgrep seaf-server 2>/dev/null 1>&2 ; then
+        echo
+        echo "seafile server is still running !"
+        echo "stop it using scripts before upgrade."
+        echo
+        exit 1
+    elif pgrep -f "${manage_py} run_gunicorn" 2>/dev/null 1>&2 \
+         || pgrep -f "seahub.wsgi:application" 2>/dev/null 1>&2; then
+        echo
+        echo "seahub server is still running !"
+        echo "stop it before upgrade."
+        echo
+        exit 1
+    elif pgrep -f "${manage_py} runfcgi" 2>/dev/null 1>&2 ; then
+        echo
+        echo "seahub server is still running !"
+        echo "stop it before upgrade."
+        echo
+        exit 1
+    fi
+}
+
+function migrate_avatars() {
+    echo
+    echo "migrating avatars ..."
+    echo
+    media_dir=${INSTALLPATH}/seahub/media
+    orig_avatar_dir=${INSTALLPATH}/seahub/media/avatars
+    dest_avatar_dir=${TOPDIR}/seahub-data/avatars
+
+    # move "media/avatars" directory outside
+    if [[ ! -d ${dest_avatar_dir} ]]; then
+        mkdir -p "${TOPDIR}/seahub-data"
+        mv "${orig_avatar_dir}" "${dest_avatar_dir}" 2>/dev/null 1>&2
+        ln -s ../../../seahub-data/avatars "${media_dir}"
+
+    elif [[ ! -L ${orig_avatar_dir} ]]; then
+        mv "${orig_avatar_dir}"/* "${dest_avatar_dir}" 2>/dev/null 1>&2
+        rm -rf "${orig_avatar_dir}"
+        ln -s ../../../seahub-data/avatars "${media_dir}"
+    fi
+    echo "Done"
+}
+
+function update_database() {
+    echo
+    echo "Updating seafile/seahub database ..."
+    echo
+
+    db_update_helper=${UPGRADE_DIR}/db_update_helper.py
+    if ! $PYTHON "${db_update_helper}" 13.0.0; then
+        echo
+        echo "Failed to upgrade your database"
+        echo
+        exit 1
+    fi
+    echo "Done"
+}
+
+function upgrade_seafile_server_latest_symlink() {
+    # update the symlink seafile-server to the new server version
+    if [[ -L "${seafile_server_symlink}" || ! -e "${seafile_server_symlink}" ]]; then
+        echo
+        printf "updating \033[33m${seafile_server_symlink}\033[m symbolic link to \033[33m${INSTALLPATH}\033[m ...\n\n"
+        echo
+        if ! rm -f "${seafile_server_symlink}"; then
+            echo "Failed to remove ${seafile_server_symlink}"
+            echo
+            exit 1;
+        fi
+
+        if ! ln -s "$(basename ${INSTALLPATH})" "${seafile_server_symlink}"; then
+            echo "Failed to update ${seafile_server_symlink} symbolic link."
+            echo
+            exit 1;
+        fi
+    fi
+}
+
+function make_media_custom_symlink() {
+    media_symlink=${INSTALLPATH}/seahub/media/custom
+    if [[ -L "${media_symlink}" ]]; then
+        return
+
+    elif [[ ! -e "${media_symlink}" ]]; then
+        ln -s ../../../seahub-data/custom "${media_symlink}"
+        return
+
+
+    elif [[ -d "${media_symlink}" ]]; then
+        cp -rf "${media_symlink}" "${seahub_data_dir}/"
+        rm -rf "${media_symlink}"
+        ln -s ../../../seahub-data/custom "${media_symlink}"
+    fi
+
+}
+
+function move_old_customdir_outside() {
+    # find the path of the latest seafile server folder
+    if [[ -L ${seafile_server_symlink} ]]; then
+        latest_server=$(readlink -f "${seafile_server_symlink}")
+    else
+        return
+    fi
+
+    old_customdir=${latest_server}/seahub/media/custom
+
+    # old customdir is already a symlink, do nothing
+    if [[ -L "${old_customdir}" ]]; then
+        return
+    fi
+
+    # old customdir does not exist, do nothing
+    if [[ ! -e "${old_customdir}" ]]; then
+        return
+    fi
+
+    # media/custom exist and is not a symlink
+    cp -rf "${old_customdir}" "${seahub_data_dir}/"
+}
+
+
+#################
+# The main execution flow of the script
+################
+
+check_python_executable;
+check_seafile_data_dir;
+ensure_server_not_running;
+
+update_database;
+migrate_avatars;
+
+move_old_customdir_outside;
+make_media_custom_symlink;
+upgrade_seafile_server_latest_symlink;
+
+
+echo
+echo "-----------------------------------------------------------------"
+echo "Upgraded your seafile server successfully."
+echo "-----------------------------------------------------------------"
+echo
diff --git a/sql/mysql.sql b/sql/mysql.sql
index cdb0371507..dd487eaf79 100644
--- a/sql/mysql.sql
+++ b/sql/mysql.sql
@@ -617,6 +617,7 @@ CREATE TABLE `organizations_orgsettings` (
   `id` int(11) NOT NULL AUTO_INCREMENT,
   `org_id` int(11) NOT NULL,
   `role` varchar(100) DEFAULT NULL,
+  `is_active` tinyint(1) NOT NULL DEFAULT 1,
   PRIMARY KEY (`id`),
   UNIQUE KEY `organizations_orgsettings_org_id_630f6843_uniq` (`org_id`)
 ) ENGINE=InnoDB DEFAULT CHARSET=utf8;
@@ -1465,7 +1466,8 @@ CREATE TABLE `sdoc_notification` (
   `seen` tinyint(1) NOT NULL DEFAULT 0,
   PRIMARY KEY (`id`),
   KEY `sdoc_notification_doc_uuid_username` (`doc_uuid`, `username`),
-  KEY `sdoc_notification_created_at` (`created_at`)
+  KEY `sdoc_notification_created_at` (`created_at`),
+  KEY `idx_user_seen` (`username`, `seen`)
 ) ENGINE=InnoDB DEFAULT CHARSET=utf8mb4;
 
 CREATE TABLE `base_clientssotoken` (
@@ -1599,3 +1601,22 @@ CREATE TABLE `group_invite_link` (
   KEY `group_invite_link_group_id` (`group_id`),
   KEY `group_invite_link_token` (`token`)
 ) ENGINE=InnoDB DEFAULT CHARSET=utf8mb4 COLLATE=utf8mb4_general_ci;
+
+CREATE TABLE `repo_extra_config` (
+  `id` int(11) NOT NULL AUTO_INCREMENT,
+  `repo_id` varchar(36) NOT NULL,
+  `config_type` varchar(50) NOT NULL,
+  `config_details` longtext DEFAULT NULL,
+  PRIMARY KEY (`id`),
+  KEY `ix_repo_extra_repo_id` (`repo_id`),
+  UNIQUE KEY `ix_repo_extra_repo_idconfig_type` (`repo_id`, `config_type`)
+) ENGINE=InnoDB DEFAULT CHARSET=utf8mb4 COLLATE=utf8mb4_general_ci;
+
+CREATE TABLE `org_last_active_time` (
+  `id` int(11) NOT NULL AUTO_INCREMENT,
+  `org_id` int(11) NOT NULL,
+  `timestamp` datetime(6) NOT NULL,
+  PRIMARY KEY (`id`),
+  UNIQUE KEY `org_id` (`org_id`),
+  KEY `ix_org_last_active_time_org_id` (`org_id`)
+) ENGINE=InnoDB DEFAULT CHARSET=utf8mb4 COLLATE=utf8mb4_general_ci;