slarson

["Welcome to OpenWorm office!"]
[09:27] == OpenWorm [6cd86e7a@gateway/web/freenode/ip.108.216.110.122] has joined #openworm-office
[09:28] <OpenWorm> hi tarelli
[09:31] <@tarelli> sup
[09:32] == mode/#openworm-office [+o OpenWorm] by tarelli
[09:32] == tarelli changed the topic of #openworm-office to: "Welcome to OpenWorm office!"
[09:36] == lambdanaut [~lambdanau@rrcs-70-63-207-139.midsouth.biz.rr.com] has joined #openworm-office
[09:36] <lambdanaut> Hello!
[09:36] <lambdanaut> You guys need better advertising. There needs to at LEAST be a hundred people in here right now.
[09:37] <@tarelli> agreed:)

slarson

[09:35] <+openworm> who has a question i can answer?
[09:36] <+openworm> It has been an interesting few weeks for the project
[09:37] <+openworm> we are reaching the end of our third release
[09:37] <+openworm> meaning we will have some new downloads by the beginning of december
[09:37] <+xrazybud> where will they be available?
[09:37] <+openworm> we will post on twitter, tumblr, g+
[09:38] <+openworm> i'm thinking we may need to add a download section to our website
[09:38] <+openworm> right now our downloads are a bit scattered
[09:38] <+openworm> here is where they are right now
[09:38] <+openworm> https://code.google.com/p/openworm/downloads/list

slarson

[09:27] <juan_idolo> Yolo!
[09:27] <@OpenWorm> haha
[09:29] <@OpenWorm> How are we doing ?
[09:35] <juan_idolo> all good ;)
[09:35] <@OpenWorm> To kick off our conversation, I wanted to show you guys the progress we made in release 3: https://docs.google.com/document/d/1cg1YnKI92tN9HZeXachTfpRlKP10OuJhXlRBabeTnuI/edit#
[09:35] <@OpenWorm> We are still working to add links to this document before mailing it out, but the accomplishments are there.
[09:36] <@OpenWorm> if folks have questions about this stuff it would be interesting to hear as I can clarify them now
[09:36] == Jeff2 [~Adium@cpc1-cmbg14-2-0-cust156.5-4.cable.virginmedia.com] has joined #openworm-office
[09:36] <@OpenWorm> Hi Jeff
[09:36] <Jeff2> Hello

slarson

09:20] == JimLacey [~androirc@212.183.128.38] has joined #openworm-office
[09:20] <@OpenWorm> Hi Jim
[09:21] <JimLacey> Hi got an android irc client this time. Much better :-)
[09:21] <@OpenWorm> Cool!
[09:22] <JimLacey> You're all here early, thought  I would test before anyone joined
[09:30] <vellamike> I think we are ready to begin?
[09:31] <@OpenWorm> Yes -- hi everyone
[09:31] <vellamike> hello all
[09:31] <john_idol> hi
[09:32] <@OpenWorm> We started up a conversation on our discuss mailing list about multi-compartmental neuronal solvers -- this might be a good topic to carry into this session

slarson

#OpenWorm CSV to JSON
#Author: Gaston Gentile

import gspread, getpass, os

os.system('clear')

#Primer paso, los datos son tomados / First Step, data is taken.
def start():
    print 'Convert CSV to JSON'

slarson

[
{"name":"flare.analytics.cluster.AgglomerativeCluster","size":3938,"imports":["flare.animate.Transitioner","flare.vis.data.DataList","flare.util.math.IMatrix","flare.analytics.cluster.MergeEdge","flare.analytics.cluster.HierarchicalCluster","flare.vis.data.Data"]},
{"name":"flare.analytics.cluster.CommunityStructure","size":3812,"imports":["flare.analytics.cluster.HierarchicalCluster","flare.animate.Transitioner","flare.vis.data.DataList","flare.analytics.cluster.MergeEdge","flare.util.math.IMatrix"]},
{"name":"flare.analytics.cluster.HierarchicalCluster","size":6714,"imports":["flare.vis.data.EdgeSprite","flare.vis.data.NodeSprite","flare.vis.data.DataList","flare.vis.data.Tree","flare.util.Arrays","flare.analytics.cluster.MergeEdge","flare.util.Sort","flare.vis.operator.Operator","flare.util.Property","flare.vis.data.Data"]},
{"name":"flare.analytics.cluster.MergeEdge","size":743,"imports":[]},
{"name":"flare.analytics.graph.BetweennessCentrality","size":3534,"imports":["flare.animate.Transitioner","flare

slarson

""" 
worm2nx.py
Simple script for turning connectome tables into NetworkX graphs.

Note that the tables were extracted manually from the connectivity spreadsheet
of the c. elegans and should accompany this script.

Author: Pedro Tabacof (tabacof at gmail dot com)
        Stephen Larson (stephen@openworm.org)
License: Public Domain

slarson

""" 
worm2nx.py
Simple script for turning connectome tables into NetworkX graphs.

Note that the tables were extracted manually from the connectivity spreadsheet
of the c. elegans and should accompany this script.

Author: Pedro Tabacof (tabacof at gmail dot com)
        Stephen Larson (stephen@openworm.org)
License: Public Domain

slarson

PREFIX rdfs:<http://www.w3.org/2000/01/rdf-schema#>
PREFIX xsd:<http://www.w3.org/2001/XMLSchema#>
PREFIX owl:<http://www.w3.org/2002/07/owl#>
PREFIX rdf:<http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX property:<http://neurolex.org/wiki/Special:URIResolver/Property-3A>
##########################################################################
## Get me all neurons and print out "true" if a property a neuron should have
## is filled in.  Print out "false" if that property is not filled in.
###########################################################################
select DISTINCT (str(?name) as ?names) (bound(?def) as ?defs) 

slarson

{
 "metadata": {
  "name": "NetworkX C. Elegans Connectome"
 },
 "nbformat": 3,
 "nbformat_minor": 0,
 "worksheets": [
  {
   "cells": [
    {