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Even if you are hosting Configurator on custom application which is not part of oracle apps, you need to login in Oracle application to launch Configurator.
You can do so either by generating ICX session ticket based on particular oracle application user or you can directly login with user/pwd parameter given in xml initialize message.
Please refer implementation guide for detail. Post detail of issue if you face any.
You can create ICX ticket in custom application by connecting to oracle db and running the plsql block given in this link.
This way your will be in your code only, it will not be passed through custom xml.