| #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) |
| 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): |
| # 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" : |
| 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 |
| 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 |
| """ | |
| 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) |
| -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 |
| #!/usr/bin/env python | |
| # -*- coding: utf8 -*- | |
| import re | |
| def protect_with_braces(title): | |
| new_title = '' | |
| words = title.split() | |
| for w in words: |
| from pysam import VariantFile | |
| import time | |
| def count_oldvar_reg(vcffile_reg, labels=["OLDVARS", "OLDVARS_A", "OLDVARS_B"]): | |
| t_start = time.time() | |
| bcf_in = VariantFile(vcffile_reg) | |
| total = 0 | |
| reg = 0 | |
| for rec in bcf_in: |
Locate the section for your github remote in the .git/config file. It looks like this:
[remote "origin"]
fetch = +refs/heads/*:refs/remotes/origin/*
url = git@github.com:joyent/node.git
Now add the line fetch = +refs/pull/*/head:refs/remotes/origin/pr/* to this section. Obviously, change the github url to match your project's URL. It ends up looking like this: