The FLEXnet Connect Agent is installed using the Merge Modules distributed along with the SDK. The default path for those merge modules is C:\Program Files\Acresso\FLEXnet Connect\Redistributables.
If you are trying to integrate with InstallShield, you would want to add that path as a Merge Module Search path within IS ( Tools -> Options -> Merge Modules ) and re-load your project file. In a Basic MSI project, this will display the merge modules in the redistributables view for inclusion in your installer. If you're using InstallScript then you may be best served building an MSI to consume the MSMs and installing that as part of your package ( ensuring that it is also uninstalled ).
There's also more information in the FNC User's Guide, which is distributed with the SDK.
From InstallAnywhere, you would normally want to install the Universal agent. However, if you had a requirement to conditionally install the Windows agent, you could definitely do so if you had the capability of creating a Windows Installer package ( .msi ) out of the merge modules we ship with the SDK.
Unfortunately, from my understanding, InstallAnywhere cannot generate an MSI package. Instead, you could use something like InstallShield to create the MSI, which you could then distribute and launch using an action within the Install task of your project.
As an alternative, you could use the Universal agent, which is Java based and fully supported by InstallAnywhere. There is a help topic in the UserGuide of the SDK entitled 'Adding an Enable Update Notifications Action' that describes the process by which the Universal Agent can be added to an IA project.
