I agree with everything you say, but when I worked in bioinformatics (caveat, >5 years ago), we did a lot of graphical stuff in Perl/Tk and it was simple and worked well. Large scale things were indeed done in Java, C++ or Delphi, but for quick and dirty, Perl was (and is) King. I still find it amazing what it can do in a few lines.
hbriem AT f-prot DOT com
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