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While committing four deletes from local master, that came from a merge, to avoid propagating unwanted files to upstream master I get org.eclipse.team.core.TeamException: An internal error occurred at org.eclipse.egit.core.op.CommitOperation.commit(CommitOperation.java:282) at org.eclipse.egit.core.op.CommitOperation$1.run(CommitOperation.java:207) at org.eclipse.core.internal.resources.Workspace.run(Workspace.java:2344) at org.eclipse.core.internal.resources.Workspace.run(Workspace.java:2326) at org.eclipse.egit.core.op.CommitOperation.execute(CommitOperation.java:217) at org.eclipse.egit.ui.internal.commit.CommitUI$2.run(CommitUI.java:217) at org.eclipse.core.internal.jobs.Worker.run(Worker.java:54) Caused by: org.eclipse.jgit.api.errors.JGitInternalException: No changes at org.eclipse.jgit.api.CommitCommand.createTemporaryIndex(CommitCommand.java:406) at org.eclipse.jgit.api.CommitCommand.call(CommitCommand.java:192) at org.eclipse.egit.core.op.CommitOperation.commit(CommitOperation.java:271) ... 6 more FRom the change in decorations, it appears that the 'no changes; successfully performed the deletes.