[Biojava-l] structure alignment seems slow ...

Jay Vyas jayunit100 at gmail.com
Wed Jan 19 23:12:50 UTC 2011


Fixed my problem, the issue was that i had multiple models in my structures,
and I assumed biojava was only using the first one.

To fix it , if you replace


        Atom[] ca2 = StructureTools.getAtomCAArray(s2);

     with

        Atom[] ca2 = StructureTools.getAtomCAArray(s2.getModel(0).get(0));

The CE alignmenbt is blazing fast. ~0 seconds

-- 
Jay Vyas
MMSB/UCHC



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