Dear Marshall,

I believe that the build problems you are having are due to a bad
interaction between the boost build system and the way mount points
are set up on your machine.

Here's the evidence:

On Thu, Jan 8, 2009 at 7:42 PM, Marshall Levesque
<marsh...@emolecules.com> wrote:
> I get these errors:
>
> ##################
> /home/marshall/boost_1_37_0/tools/build/v2/build/virtual-target.jam:
> 1047: in virtual-target.register-actual-name from module virtual-target
> error: Duplicate name of actual target: <p/home/marshall/
> RDKit_Q32008_1/bin>libForceField.so
> error: previous virtual target { common%common.copy-
> libForceField.so.SHARED_LIB ....

This makes me think that your RDBASE is
/home/marshall/RDKit_Q32008_1

> error: created from ForceField/lib-install
> error: added properties: <include>. <xdll-path>/mnt/boron/home/
> marshall/RDKit_Q32008_1/Code/DataStructs/bin/gcc-4.1.2/release/address-
> model-64/threading-multi <xdll-path>/mnt/boron/home/marshall/
> RDKit_Q32008_1/Code/Geometry/bin/gcc-4.1.2/release/address-model-64/

And this indicates that bjam is finding the same directories with a
different path:
/mnt/boron/home/marshall/RDKit_Q32008_1

This causes the confusion and the error.
You should be able to solve the problem by changing RDBASE to:
/mnt/boron/home/marshall/RDKit_Q32008_1

Best Regards,
-greg

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