Improve performance in elasticity by moving out the computation of X from the integration point loop.
Before:
```
12.576967 seconds (37.65 M allocations: 1.852 GiB, 11.65% gc time)
```
After:
```
11.251927 seconds (35.27 M allocations: 1.692 GiB, 11.27% gc time)
```
2 million allocations less.
Store element connectivity as "Mixed" format to Xdmf file. It's a long
list where first number is element code and then there is connectivity
data (starting from 0). Xdmf format does not support several
Topology-elements in Xml file format, so before it was not possible to
store e.g. both Tri3 and Quad4 elements in same problem. After this
commit this should now be possible. Paraview Xdmf3 reader is needed to
use.
* Fix deprecation warnings from tests
* Refactor tests so that ´@testset` is usually called in master file
`runtests.jl`, not inside test file. Later on we can convert tests
to examples.
* Syntax of tests now follow more closely syntax used currently in
JuliaFEM. We have had earlier studies with different kind of syntaxes,
now we have kind of explicit way to do things.
* Simple linear static example to be shown in SMP18
* Improvements based on Jukka's review
* Fixing spacing after Literature.notebook run
* Adding ## Testing at the end of the example to make sure that something breaks, if the results will change
* Update linear_static.jl
Some little tweaks, mainly making that filter function more understandable.
Use FEMBeam.jl to solve beam problems. Added an example, where
natural frequencies of frequencies of 3d frame structure are
calculated. Some minor modifications to Modal analysis is done to make
Xdmf writing of 6 dof nodes work.
Let's use Literate.jl to automatically generate usage examples.
* Automatically generate documentation from other packages (first try to include each package's docs/src/index.md, but if that fails, then use README.md to introduce the package).
* Add example how to calculate local element matrices.
* Add example how to perform 2d contact analysis.
Development of auto-differentiated mortar contact mechanics in 2D is moved to own separate package, MortarContact2DAD. Other changes are similar to what is done with MortarContact2D: elements are added to problems using `add_slave_elements!` and `add_master_elements!` instead of `add_elements!`, to make interface more explicit. Also, problem name is `Contact2DAD`, so the dimension is now explicitly stated in problem name. (Also have `Mortar2DAD`, compare to the `Mortar2D` and `Contact2D` of `MortarContact2D.jl`.)
Moved plane contact related stuff to own separate package
`MortarContact2D.jl`, where the development continues.
The following changes to test files are done:
1) Problem name for plane mortar coupling is `Mortar2D` (was `Mortar`
before), and later on 3d coupling will be `Mortar`. So the dimension
of coupling operator is explicitly given in a problem name.
2) Before elements to coupling was defined using
```julia
update!(problem.elements, "master elements", master_elements)
add_elements!(problem, [slave_elements; master_elements])
```
Now, explicitly give master and slave elements as
```julia
add_slave_elements!(problem, slave_elements)
add_master_elements!(problem, master_elements)
```
Keep on mind that Lagrange multipliers are in slave side.
Heat transfer analysis is moved to its own package where the development continues. Two small modifications are needed for test files:
- Instead of `problem.properties.formulation`, we have two separate problems, `PlaneHeat` for two-dimensional problems and `Heat` for three-dimensional problems.
- Unnecessary prefixing of field names is changed. For example, now we simply have only "thermal conductivity" and not prefixed "temperature thermal conductivity".
Jukka Aho