The maximum permissible residue name length is at least 5 characters long for a
tpr or gro, but the length of residue name permitted by make_ndx is only 4
characters. And of course, pdb should have only 3 characters. While I can
change the names in a gro or a pdb quite quickly and easily, is there a way to
change this in a tpr? I'm currently getting around the problem by converting
tprs to pdbs for use by make_ndx, but it's messy... Alternatively, is there
any fundamental reason why the string in make_ndx inputs is less than that for
files, or can I safely bump up the relevant digit in the code and recompile?
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