Analyze Map tool throws the following warning, “Layers data source is ArcSDE not accessed via a direct connect”, if the ArcSDE geodatabase version is appended in the service field while connecting from ArcCatalog.
This issue is not reproducible in the current release of the software. Contact ESRI Technical Support (for customers in the United States) or ESRI distributor (for customers outside the United States) to resolve this issue, if the issue persists.