tarelli

/*******************************************************************************
 * The MIT License (MIT)
 *
 * Copyright (c) 2011, 2013 OpenWorm.
 * http://openworm.org
 *
 * All rights reserved. This program and the accompanying materials
 * are made available under the terms of the MIT License
 * which accompanies this distribution, and is available at
 * http://opensource.org/licenses/MIT

tarelli

from __future__ import with_statement
import os


import urllib
import tempfile, shutil, zipfile, re, sys
from fabric.api import local, lcd, hide, show, settings
import os.path as op

import sys

tarelli

var giovanni={}
giovanni.X=4
4
giovanni.Y=5
5
giovanni
Object {X: 4, Y: 5}
gioInstance.getType= function(){return this.target};
function (){return this.target}

tarelli

import os
import sys
from subprocess import check_output as co
from distutils.core import run_setup

class working_dir(object):
    """Context manager for changing the current working directory"""
    def __init__(self, newPath):
        self.newPath = newPath

tarelli

org.geppetto/utilities/source_setup/python gitall.py pull //make sure everything is updated
org.geppetto/mvn install //this will download all the new libraries required (if any)
org.geppetto/utilities/source_setup/python update_server.py eclipse //this will copy everything to virgo

tarelli

Matteos-MacBook-Pro:~ matteocantarelli$ python build_server_package.py 
['http://ftp.osuosl.org/pub/eclipse//virgo/milestone/VP/3.6.0.M01/virgo-tomcat-server-3.6.0.M01.zip', 'https://github.com/openworm/org.openworm.simulationengine.core/archive/master.zip', 'https://github.com/openworm/org.openworm.simulationengine/archive/master.zip', 'https://github.com/openworm/org.openworm.simulationengine.samplesimulation/archive/master.zip', 'https://github.com/openworm/org.openworm.simulationengine.frontend/archive/master.zip', 'https://github.com/openworm/org.openworm.simulationengine.samplesolver/archive/master.zip', 'https://github.com/openworm/org.openworm.simulationengine.model.sph/archive/master.zip', 'https://github.com/openworm/org.openworm.simulationengine.solver.sph/archive/master.zip', 'https://github.com/openworm/org.openworm.simulationengine.simulator.sph/archive/master.zip', 'https://github.com/openworm/org.openworm.simulationengine.simulation/archive/master.zip', 'https://github.com/openworm/org.openwor

tarelli

Save the script as /etc/init.d/virgo
chmod 755 /etc/init.d/virgo

Make a link to it from /etc/rc3.d such as:
cd /etc/rc5.d
sudo ln -s ../init.d/virgo S90virgo

use chmod -R 777 on the virgo folder

tarelli

https://www.dropbox.com/s/iyr085zcegyis0n/sph-sim-config.xml?dl=1 23/04/13 Not working
https://www.dropbox.com/s/7vxeh6qbln9jesk/sph-sim-config-test.xml?dl=1
https://dl.dropboxusercontent.com/u/7538688/funzionare.xml?dl=1

tarelli

<?xml version="1.0" encoding="UTF-8"?>
<tns:simulation xmlns:tns="http://www.openworm.org/simulationSchema" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.openworm.org/simulationSchema ../../src/main/resources/schema/simulationSchema.xsd ">
  <tns:configuration>
    <tns:outputFormat>RAW</tns:outputFormat>
  </tns:configuration>
  <tns:entities>
    <tns:entity>
      <tns:id>muscle_cell</tns:id>
      <tns:aspects>
        <tns:aspect>

tarelli

* Basic simulation XML specification
* Basic simulation lifecycle
  * Start/Pause/Stop/Reset
* Simulators currently in development
  * Fluid hydrodynamics simulator bundle (PCI-SPH)
  * Neuronal simulator bundle (LEMS/NeuroML)
* WebGL Frontend
  * 3D visualization
    * Particle system
    * Ball stick morphologies