To deploy a web project, you need to add it in Server Manager:
http://www.dynamsoft.com/help/SAW Standalone/Server Manager/Database/Repositories/Web Projects.htm
In this dialog box, click Add button, and you will get the following dialog box:
http://www.dynamsoft.com/help/SAW Standalone/Server Manager/Dialog Boxes/Add Web Project.htm
In the resulting dialog box, input the required info and click OK.
At this point, you can perform a Web Deploy command on the project.