Fix problem in decoding GRAPH JSON, due to special characters in DataType.user_tag fields.

git-svn-id: https://repo.thevirtualbrain.org/svn/tvb/trunk/scientific_library@6805 1c0e02f0-7929-43c0-8fb3-3293bf43b0d1
TVB-1629
Split Simulator.configure() in two parts (the light one before memory estimate, and the full configure, before execution).
PEP8: cleanup simulator module.

git-svn-id: https://repo.thevirtualbrain.org/svn/tvb/trunk/scientific_library@6809 1c0e02f0-7929-43c0-8fb3-3293bf43b0d1
TVB-1629 fix

git-svn-id: https://repo.thevirtualbrain.org/svn/tvb/trunk/scientific_library@6810 1c0e02f0-7929-43c0-8fb3-3293bf43b0d1
Improve documentation on FullGraphStructure class.
Set session timeout to 10 hours.

git-svn-id: https://repo.thevirtualbrain.org/svn/tvb/trunk/scientific_library@6813 1c0e02f0-7929-43c0-8fb3-3293bf43b0d1
Prepare for release 1.3

git-svn-id: https://repo.thevirtualbrain.org/svn/tvb/trunk/scientific_library@6814 1c0e02f0-7929-43c0-8fb3-3293bf43b0d1
Update simulator diagrams from api-documentation as generated with the latest code version.

git-svn-id: https://repo.thevirtualbrain.org/svn/tvb/trunk/scientific_library@6816 1c0e02f0-7929-43c0-8fb3-3293bf43b0d1
Fix surface-simulator demos after change in the way default Cortex gets loaded.

git-svn-id: https://repo.thevirtualbrain.org/svn/tvb/trunk/scientific_library@6819 1c0e02f0-7929-43c0-8fb3-3293bf43b0d1
Update demo

git-svn-id: https://repo.thevirtualbrain.org/svn/tvb/trunk/scientific_library@6825 1c0e02f0-7929-43c0-8fb3-3293bf43b0d1
Document performance issues. More accurate release notes.

git-svn-id: https://repo.thevirtualbrain.org/svn/tvb/trunk/scientific_library@6827 1c0e02f0-7929-43c0-8fb3-3293bf43b0d1
Merge branch 'trunk' of https://github.com/the-virtual-brain/tvb-library into trunk
Remove unnecessary reallocation of derivative arrays.

git-svn-id: https://repo.thevirtualbrain.org/svn/tvb/trunk/scientific_library@6831 1c0e02f0-7929-43c0-8fb3-3293bf43b0d1
Fix mistake I introduced when defining the axis for computing the coupled input.

git-svn-id: https://repo.thevirtualbrain.org/svn/tvb/trunk/scientific_library@6840 1c0e02f0-7929-43c0-8fb3-3293bf43b0d1
Coupling: correct mistake I introduced when changing the axis of the explicit summation in the coupling term. This implementation respects now the convention described in the docstring.

git-svn-id: https://repo.thevirtualbrain.org/svn/tvb/trunk/scientific_library@6841 1c0e02f0-7929-43c0-8fb3-3293bf43b0d1
Simulator: fix the shape of node_coupling in surface simulations.

git-svn-id: https://repo.thevirtualbrain.org/svn/tvb/trunk/scientific_library@6847 1c0e02f0-7929-43c0-8fb3-3293bf43b0d1
TVB-1637
When building TVB_Distributions with PyInstaller, do not place: tvb_data/exe/python.exe, but rather tvb_data/python.exe, to avoid OS loading DLLs from system. 
With python.exe inside tvb_data current folder has priority in the search for resources to load.

git-svn-id: https://repo.thevirtualbrain.org/svn/tvb/trunk/scientific_library@6848 1c0e02f0-7929-43c0-8fb3-3293bf43b0d1
TVB-1629
Amendment to previous split configure + preconfigure:
- avoid running preconfigure part twice by adding a parameter in configure call
- fix disk-space estimation for RAW monitor (which is not having yet monitor.period set)

git-svn-id: https://repo.thevirtualbrain.org/svn/tvb/trunk/scientific_library@6857 1c0e02f0-7929-43c0-8fb3-3293bf43b0d1
Temporary fix for the import of old Surface DataTypes to work.

git-svn-id: https://repo.thevirtualbrain.org/svn/tvb/trunk/scientific_library@6859 1c0e02f0-7929-43c0-8fb3-3293bf43b0d1
Merge branch 'trunk' of https://github.com/the-virtual-brain/tvb-library into trunk
Do not open binary files in text mode

git-svn-id: https://repo.thevirtualbrain.org/svn/tvb/trunk/scientific_library@6877 1c0e02f0-7929-43c0-8fb3-3293bf43b0d1
Revert #6877 change. ZipFile.open does not support mode 'rb'.

git-svn-id: https://repo.thevirtualbrain.org/svn/tvb/trunk/scientific_library@6880 1c0e02f0-7929-43c0-8fb3-3293bf43b0d1