Incorrect warning for a deletion not conforming to the 3' rule

[leicray]

Describe the bug
Validation of a variant description describing a deletion that does not conform to the 3' rule generates an incorrect warning.

To Reproduce
Validate the variant description NM_005445.3:c.717_719del

Expected behaviour
The warning that is displayed is NM_005445.3:c.717_719del automapped to NM_005445.3:c.720_722delTGA but should be NM_005445.3:c.717_719del automapped to NM_005445.3:c.720_722del.

This behaviour is observed with the interactive tool and the batch tool.

[ifokkema]

Note that #584 suggests the idea of tossing these "automapping" messages altogether, as they are meant for internal use only.

[leicray]

I'm not sure what you mean by "...they are meant for internal use only."

They are certainly of use to users of the interactive validator who might otherwise not understand that the validated output does not correspond to the submitted variant because of the 3' rule being applied. I would argue that the same is also true for the batch tool. The only place where it is perhaps not needed is tools whose output is intended to be solely machine-readable.

[ifokkema]

I agree that some form of warning should be shown, indicating the original input wasn't correct.

[Peter-J-Freeman]

OK, I see now why we included these warnings. I need to trim them. The thing is though that not all may be perfect.

[Peter-J-Freeman]

Fixed. Needs server update to take effect. Be patient please @leicray :)