When running my WebApp project from Eclipse most of times it run correctly. But if by mistake to stop server, I kill it in "Console" view on instead of "Stop" Server from "Servers" View. While running clean project I get this

java.lang.NullPointerException
at org.eclipse.wst.common.componentcore.internal.util.VirtualReferenceUtilities.getDefaultProjectArchiveName(VirtualReferenceUtilities.java:81)
at org.eclipse.jst.j2ee.componentcore.J2EEModuleVirtualComponent.getJavaClasspathReferences(J2EEModuleVirtualComponent.java:332)
at org.eclipse.jst.j2ee.componentcore.J2EEModuleVirtualComponent.getNonManifestRefs(J2EEModuleVirtualComponent.java:236)
at org.eclipse.jst.j2ee.componentcore.J2EEModuleVirtualComponent.getReferences(J2EEModuleVirtualComponent.java:160)
at org.eclipse.jst.j2ee.componentcore.J2EEModuleVirtualComponent.getReferences(J2EEModuleVirtualComponent.java:208)
at org.eclipse.jst.j2ee.componentcore.J2EEModuleVirtualComponent.getReferences(J2EEModuleVirtualComponent.java:201)
at org.eclipse.jst.common.internal.modulecore.SingleRootUtil.hasConsumableReferences(SingleRootUtil.java:217)
at org.eclipse.jst.common.internal.modulecore.SingleRootUtil.validateSingleRoot(SingleRootUtil.java:165)
at org.eclipse.jst.common.internal.modulecore.SingleRootUtil.isSingleRoot(SingleRootUtil.java:93)
at org.eclipse.jst.common.internal.modulecore.SingleRootExportParticipant.canOptimize(SingleRootExportParticipant.java:84)
at org.eclipse.wst.common.componentcore.internal.flat.FlatVirtualComponent.canOptimize(FlatVirtualComponent.java:136)
at org.eclipse.wst.common.componentcore.internal.flat.FlatVirtualComponent.cacheResources(FlatVirtualComponent.java:118)
at org.eclipse.wst.common.componentcore.internal.flat.FlatVirtualComponent.fetchResources(FlatVirtualComponent.java:101)
at org.eclipse.wst.web.internal.deployables.FlatComponentDeployable.members(FlatComponentDeployable.java:147)
at org.eclipse.wst.server.core.internal.ModulePublishInfo.hasDelta(ModulePublishInfo.java:418)
at org.eclipse.wst.server.core.internal.ServerPublishInfo.hasDelta(ServerPublishInfo.java:443)
at org.eclipse.wst.server.core.internal.Server.hasPublishedResourceDelta(Server.java:1539)
at org.eclipse.wst.server.core.internal.Server$ResourceChangeJob$1.visit(Server.java:214)
at org.eclipse.wst.server.core.internal.Server.visitModule(Server.java:2929)
at org.eclipse.wst.server.core.internal.Server.visit(Server.java:2913)
at org.eclipse.wst.server.core.internal.Server$ResourceChangeJob.run(Server.java:225)
at org.eclipse.core.internal.jobs.Worker.run(Worker.java:54)

And while launching I get this

SEVERE: Error starting static Resources
java.lang.IllegalArgumentException: Document base D:\workspace\.metadata\.plugins\org.eclipse.wst.server.core\tmp0\wtpwebapps\Webapp does not exist or is not a readable directory
    at org.apache.naming.resources.FileDirContext.setDocBase(FileDirContext.java:142)
    at org.apache.catalina.core.StandardContext.resourcesStart(StandardContext.java:4319)
    at org.apache.catalina.core.StandardContext.start(StandardContext.java:4488)
    at org.apache.catalina.core.ContainerBase.start(ContainerBase.java:1053)
    at org.apache.catalina.core.StandardHost.start(StandardHost.java:840)
    at org.apache.catalina.core.ContainerBase.start(ContainerBase.java:1053)
    at org.apache.catalina.core.StandardEngine.start(StandardEngine.java:463)

Please help recover from this.