I put the file back in place and it is still giving me this error.

Caused by: org.eclipse.core.internal.dtree.ObjectNotFoundException: Tree element '/pharmaservices/pharmaServicesTestData.xml' not found.
at org.eclipse.core.internal.dtree.AbstractDataTree.handleNotFound(AbstractDataTree.java:257)
at org.eclipse.core.internal.dtree.DeltaDataTree.getData(DeltaDataTree.java:585)
at org.eclipse.core.internal.dtree.DataDeltaNode.asBackwardDelta(DataDeltaNode.java:50)
at org.eclipse.core.internal.dtree.NoDataDeltaNode.asBackwardDelta(NoDataDeltaNode.java:59)
at org.eclipse.core.internal.dtree.DataDeltaNode.asBackwardDelta(DataDeltaNode.java:47)
at org.eclipse.core.internal.dtree.DeltaDataTree.asBackwardDelta(DeltaDataTree.java:88)
at org.eclipse.core.internal.dtree.DeltaDataTree.reroot(DeltaDataTree.java:816)
at org.eclipse.core.internal.dtree.DeltaDataTree.reroot(DeltaDataTree.java:815)
at org.eclipse.core.internal.dtree.DeltaDataTree.reroot(DeltaDataTree.java:815)
at org.eclipse.core.internal.dtree.DeltaDataTree.reroot(DeltaDataTree.java:792)
at org.eclipse.core.internal.watson.ElementTree.immutable(ElementTree.java:517)
at org.eclipse.core.internal.resources.SaveManager.restore(SaveManager.java:688)
at org.eclipse.core.internal.resources.SaveManager.startup(SaveManager.java:1503)
at org.eclipse.core.internal.resources.Workspace.startup(Workspace.java:2134)
at org.eclipse.core.internal.resources.Workspace.open(Workspace.java:1883)
at org.eclipse.core.resources.ResourcesPlugin.start(ResourcesPlugin.java:406)
at org.eclipse.osgi.framework.internal.core.BundleContextImpl$1.run(BundleContextImpl.java:783)
at java.security.AccessController.doPrivileged(Native Method)
at org.eclipse.osgi.framework.internal.core.BundleContextImpl.startActivator(BundleContextImpl.java:774)
... 29 more

mnsuzuki1,

Sorry that you are seeing this issue with MyEclipse.

Can you answer some more questions for us to understand the issue better ?

1) Which version of MyEclipse are you working with ? Share your Build ID from Help > About MyEclipse Enterprise Edition > Build ID.

2) Can you please elaborate on the steps you are following for us to be able to replicate the issue at our end ?

3) Take a look at this thread where a user posted his solution :
http://www.myeclipseide.com/PNphpBB2-viewtopic-t-18037.html

Let us know how it works for you.