Hi all,

I've written an 3D alignment class that performs Kabsch alignment of
two 3D structures (whose atoms are in the same order). It can handle
symmetry and has the option to only align certain atoms (typically
non-H atoms). It can also be used to align a set of arbitary vectors.

The thing is...it has a dependency on Tim's symmetry code which uses
bliss. bliss is GPLv2 and available from
http://www.tcs.hut.fi/Software/bliss/. My code also has a dependency
on Eigen2.

Now, is it okay to dump bliss into the include directory? This will,
in any case, be a requirement for merging Tim's new symmetry code
which I think can how handle 95% of tricky symmetry cases, and is
probably ready to merge.

How about Eigen2? Should I just optionally compile?

- Noel

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