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View deleting_line_plot_matplotlib.py
# Deleting a line in matplot lib
fig = figure()
ax = fig.add_subplot(111)
x = linspace(0,10)
plot(x, sin(x), label='sin')
plot(x, cos(x), label='cos')
# Deleting the last one
del ax.lines[1]
draw() # updating the fig
View create_new_dir_by_day.py
def create_new_dir(self, prefix="./", root="Sims"):
"""
Create the directory where to put the simulation
"""
self.dirRoot = os.path.join(prefix, root)
today = datetime.date.today()
free = False
index = 0
View saving_compressed_array. Maybe useful later on.
def save_node(self, h5file_holder, group_path, section_name, variables,
detail=''):
"""Save a node to the h5file.
h5file_holder: The holder of the h5file
group_path: Where in the hierarchy the leaf has to be saved
section_name: The name of the section which the variables belong to
variables: The dictionary of the variable
"""
found = False
target_group = None
View cyl_example.py
#cyl_example.py
from enthought.tvtk.tools import visual
def draw_cyl(coords):
x_ax = coords['x1'] -coords['x0']
y_ax = coords['y1'] -coords['y0']
z_ax = coords['z1'] -coords['z0']
cyl = visual.Cylinder(pos=(coords['x0'],coords['y0'],coords['z0']),
axis=(x_ax,y_ax,z_ax), radius=1, length=10)
@mattions
mattions / cylinder_color_change.py
Created May 4, 2011
Using mlab to change a second scalar for the cilinders..
View cylinder_color_change.py
import numpy as np
from mayavi import mlab
class Animator(object):
def __init__(self):
self.scalar_active_attribute = None
def add_scalar_array(self, dataset, tube, scalar_data, scalar_data_name):
@mattions
mattions / a.param
Created Jun 27, 2011
Easy way to get params from external file in the main script (and work with them)
View a.param
# Parameters file for simulation.
{
"dt" : 0.025, # integration dt [ms]
"dict_ampa_s1" :
{"t_stim" : 0.130, # t_stim [s]
"numbers" : 4, # number
"delay" : 0.1, # delay [s]
"type" : "ampa" # , type
},
"dict_ampa_s2" :
@mattions
mattions / offscreen_3D_Neuronvisio.py
Created Sep 12, 2011
Off screen rendering of a 3D window of Neuronvisio
View offscreen_3D_Neuronvisio.py
import os
from shutil import copyfile
import numpy as np
# Getting the qt in before mayavi
from PyQt4 import QtGui
app = QtGui.QApplication.instance()
from enthought.mayavi import mlab
# Offscreen
@mattions
mattions / run_model_in_neuronvisio_example.py
Created Sep 12, 2011
run a downloaded model in Neuronvisio
View run_model_in_neuronvisio_example.py
def run_model_in_neuronvisio(model_dir):
if os.path.exists(os.path.join (model_dir, 'mosinit.hoc')):
os.chdir(model_dir)
#TODO: We should check if the file is already compiled,
# and call the right executable according to the system.
call(['nrnivmodl'])
from neuron import gui # to not freeze neuron gui
from neuron import h
from neuronvisio.controls import Controls
@mattions
mattions / patch_qstring_windows_pyqt.py
Created Oct 2, 2011
importing the right Qstring for Python 3 on windows
View patch_qstring_windows_pyqt.py
"""
This is a check to make sure the sip and the Qstrings play nicely in Windows,
where the PySide is using the new Python API (Python 3)
http://www.mail-archive.com/matplotlib-users@lists.sourceforge.net/msg19702.html
http://stackoverflow.com/questions/1400858/how-to-create-qstring-in-pyqt4
This could be easily removed when we move to Python 3
"""
if os.name == 'nt':
import sip
sip.setapi('QString', 2)
@mattions
mattions / neuronvisio_dev_reqs.txt
Created Feb 8, 2012
Requirements for version 0.8.0 of neuronvisio
View neuronvisio_dev_reqs.txt
-e git+https://mattions@github.com/mattions/mayavi.git@fix-21#egg=mayavi
-e git+https://github.com/enthought/traitsui.git#egg=traitsui
ipython==0.12
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