The counts of issues, between the integrated Violations plugin, and the separate stand alone ones are different. Upon investigation, the stand alone ones where found to be wrong, in the example, show in the attached image, the PMD one is wrong. It should be 2402, as correctly shown in the violations plugin. The FindBugs figures are the same. However, the CheckStyle ones are much further out of alignment. (Again, the violations plugin is showing the correct figure).
I understand the simple out by one errors.
But how can we have a difference of 25?
These are being run under Jenkins 1.427, PMD 3.22, FidnBugs 4.30, CheckStyle 3.21, Violations 0.7.10 and the Statis Analysis Utilities 1.32.