Over 10 error messages in CING validation report warrants further debugging

What steps will reproduce the problem?
1. Grepping for error in the log of finished entries and filtering for above 10 
per entry gives this list of 39 entries:

Given a low priority at first because no time to check all in detail.

1631 1y0j ERROR:     no pseudo of pseudoatom <Atom A.VAL205.CG1> repeated many 
times
1426 1kft ERROR: Failed to get parent residue for atom with name: HD23 
681  2exg ERROR IN CODE: TODO: fix Residue#removeAtom.
454  2ca7 ERROR: Failed to get parent residue for atom with name: HG2. This is 
due to gross inconsistencies between models.
442  2l0f ERROR: Failed to calculate a violation angle. Reclassified to warning.
352  2hym ERROR:     no pseudo of pseudoatom <Atom A.LEU52.CD1>
210  1rkl ERROR: Failed to get parent residue for atom with name: HB3
166  2jnc ERROR: Failed to get parent residue for atom with name: HB3
164  2ofg
160  2kml
159  1w9r
159  1msh
138  2knq
131  2kny
123  2kyt
122  1qe7
118  2kcc
110  2j15
106  2l14
106  2ktf
78   2rr4
59   1bn0
58   2l4g
50   7hsc
43   1yyj
40   2jxh
38   1f8h
37   2kym
35   1e0a
35   1ckr
30   2l0g
25   1e0q
18   2bgf
17   1w4k
16   2oed
16   1d0w
15   1pjf
11   1aj3

Original issue reported on code.google.com by jurge...@gmail.com on 10 Nov 2010 at 2:07

AlphaBetaTest / cing

Over 10 error messages in CING validation report warrants further debugging #267