#!/usr/bin/env python
# coding: utf-8

# # Generate TimeSeries H5 from Library Profile to import in Web GUI
# 
# 
# TVB has the custom notion of "profile". Based on the selected TVB profile, we enable/disable some TVB modules and default features (storage, load defaults).
# 
# We make a clear distinction between running TVB under WEB_PROFILE or LIBRARY_PROFILE.
# 
# Currently it is not possible to switch in the same code from one TVB profile to another, but it is  possible to share data, as described in the current demo. 
# 
# You can find more info about TVB profiles here: http://docs.thevirtualbrain.org/manuals/UserGuide/UserGuide-Shell.html#tvb-profiles

# ## Step 1
# 
# Let us start by running a standard TVB simulation, with the LIBRARY_PROFILE 
# (from tvb.simulator.lab import * will set the LIBRARY_PROFILE).

# In[1]:


get_ipython().run_line_magic('matplotlib', 'widget')
from tvb.simulator.lab import *
from tvb.datatypes import time_series
from tvb.basic.config import settings
import numpy as np


# In[ ]:


jrm = models.JansenRit(mu=np.array([0.]), v0=np.array([6.]))
monitor = monitors.TemporalAverage(period=2 ** -2)

# the other aspects of the simulator are standard
sim = simulator.Simulator(
    model=jrm,
    connectivity=connectivity.Connectivity.from_file(),
    coupling=coupling.SigmoidalJansenRit(a=np.array([10.0])),
    monitors=(monitor,),
    simulation_length=1e3,
).configure()

# run it
(time_array, data_array), = sim.run()


# ## Step 2
# 
# write the simulation result in a H5 file.

# In[3]:


from tvb.core.neocom import h5
from tvb.basic.profile import TvbProfile

TvbProfile.set_profile(TvbProfile.COMMAND_PROFILE)

series_of_time = time_series.TimeSeries(data=data_array, time=time_array, sample_period=monitor.period)
h5.store_complete_to_dir(series_of_time, ".")


# Now you should have a file named "TimeSeriesRegion.......h5" in the current folder where ipython notebook has been launched. 
# 
# You can take this "TimeSeriesRegion.h5" file and import it into TVB web GUI, as described here:
# http://docs.thevirtualbrain.org/manuals/UserGuide/UserGuide-UI_Project.html#data-structure
# 
# After import in TVB web GUI, you will have a new TimeSeriesRegion file in your current project, which can be used with TVB web visualizers.
# 
#