VariableGroup DofMap optimizations

[benkirk]

Now that VariableGroups work, start optimizing things like SparsityPattern generation, dof_indices, etc...

[benkirk]

For the important practical case of many variables in a system all of the same FEType, I'm preparing a pull request that implement the PETSc BAIJ (blocked) format. It is actually trivially easy.

For one particular application where I have 5 linear lagrange variables in a single system, peak memory usage decreased from XXX MB to 541.6 MB.

I have not benchmarked the speedup yet.

Also, I'll add the MatSetValuesBlocked() calls later, which should really help matrix insertion time.

@friedmud, @jwpeterson - I assume this would be of interest to you guys?

[benkirk]

For one particular application where I have 5 linear lagrange variables in a single system, peak memory usage decreased from XXX MB to 541.6 MB.

Make that "For one particular application where I have 5 linear lagrange variables in a single system, peak memory usage decreased from 759.8 MB to 541.6 MB."

This is because less integer indexing is required to store the sparse matrix graph.

[permcody]

Yes! Very much so

Sent from my iPhone

On Apr 15, 2013, at 2:35 PM, "Benjamin S. Kirk" notifications@github.com
wrote:

For the important practical case of many variables in a system all of the
same FEType, I'm preparing a pull request that implement the PETSc BAIJ
(blocked) format. It is actually trivially easy.

For one particular application where I have 5 linear lagrange variables in
a single system, peak memory usage decreased from XXX MB to 541.6 MB.

I have not benchmarked the speedup yet.

Also, I'll add the MatSetValuesBlocked() calls later, which should really
help matrix insertion time.

@friedmud https://github.com/friedmud,
@jwpetersonhttps://github.com/jwpeterson- I assume this would be of
interest to you guys?

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