Merge pull request #40 from briandrawert/develop

Fixing cylinder_demo after the hdf5 change of U matrix orientiation
Added utility function to retrive a submatrix of U that contains a certain species values in each voxel for all timepoints.
First attempt at exporting the mesh as a json document for three.js
First version of plotting solution in colors on the mesh
Merge pull request #4 from ahellander/threejstest

First version of plotting solution in colors on the mesh
will the IPython display work with MOLNs
bug fix
HTML not display_html
HTML with display
more work with three.js and ipython
reorder some JS
started to patch up nem solver
Merge pull request #43 from briandrawert/threejstest

Threejstest
Merge branch 'nemfixes' into threejstest
zero padding for z-coodinate for true 2D meshes
Fixed a couple of JS errors
Display of meshes in Notebook now works. Added funtionality to center the exported mesh on origo for nicer plots
Baisic plotting of solutions in Ipython Notebook works
Fixed unpickling bug in model
Result files are only deleted upon deconstruction, data_is_loaded is still used for optimizations. When pickling the result object, the whole filecontents of the output hdf5 file gets passed along. Unpickling writes that filecontent to a new tmp file. This allows for robust remote client-host transfers of result objects.