palexander

module LinkedData
  module Models
    class Review < Goo::Base::Resource
      model :review
      validates :creator, :presence => true, :cardinality => { :maximum => 1 }
      validates :created, :date_time_xsd => true, :presence => true, :cardinality => { :maximum => 1 }
      validates :body, :presence => true, :cardinality => { :maximum => 1 }
      validates :ontologyReviewed, :presence => true, :cardinality => { :maximum => 1 }
      validates :usabilityRating, :cardinality => { :maximum => 1 }
      validates :coverageRating, :cardinality => { :maximum => 1 }

palexander

Accessing BioPortal REST API from the browser with JSONP

This is a prototype service. As such, NCBO will not be providing support for its usage.

Signature

• http://bioportal.bioontology.org/ajax/jsonp?path=%2Fontologies&callback=?&apikey=your_api_key&userapikey=user_api_key

Parameters

The endpoint takes a few parameters (* required):

• • path={REST service endpoint path} - this should not include the /bioportal

palexander

# Thanks to @samsonjs for the cleaned up version:
# https://gist.github.com/samsonjs/4076746

PREFIX=$HOME
VERSION=1.2.3

# Install Protocol Buffers
wget http://protobuf.googlecode.com/files/protobuf-2.4.1.tar.bz2
tar -xf protobuf-2.4.1.tar.bz2 
cd protobuf-2.4.1

palexander

• JSON-LD
  • JSON-LD: JSON for Linked Data
  • Gregg Kellog has agreed to pay us a visit in July to discuss
• OntoText Linked Life Data
  • Linked Life Data UI
  • 1 billion+ RDF resources
  • Similar to NCBO Resource Index
• W3C Semantic Web Activities
  • Audio/Video markup
  • SPARQL 1.1

palexander

# Adjust sessions so they work across subdomains
# This also will work if your app runs on different TLDs

# from: http://szeryf.wordpress.com/2008/01/21/cookie-handling-in-multi-domain-applications-in-ruby-on-rails/
# modified to work with Rails 2.3.0

module ActionControllerExtensions
  def self.included(base)
    base::Dispatcher.send :include, DispatcherExtensions
  end

palexander

# Two new A records
*.stage.bioontology.org 171.67.213.48
*.bioportal.bioontology.org 171.67.213.45


### Apache configuration

#
# Your VirtualHosts section
#

palexander

# Sync with the remote master
git pull

# Force your clone to look like HEAD
git reset --hard

# AGAIN, A WARNING: This can really break stuff!

# Run your filter branch command, replacing all instances of "password" with "your_password"
# The example looks for Ruby files ("*.rb"), you can change this to match your needs

palexander

java.lang.StackOverflowError
	at java.util.HashSet.add(HashSet.java:200)
	at org.coode.owlapi.rdf.model.RDFGraph.addTriple(RDFGraph.java:58)
	at org.coode.owlapi.rdf.model.RDFTranslator.addTriple(RDFTranslator.java:54)
	at org.coode.owlapi.rdf.model.RDFTranslator.addTriple(RDFTranslator.java:38)
	at org.coode.owlapi.rdf.model.AbstractTranslator.addSingleTripleAxiom(AbstractTranslator.java:764)
	at org.coode.owlapi.rdf.model.AbstractTranslator.addSingleTripleAxiom(AbstractTranslator.java:746)
	at org.coode.owlapi.rdf.model.AbstractTranslator.visit(AbstractTranslator.java:470)
	at uk.ac.manchester.cs.owl.owlapi.OWLDataPropertyAssertionAxiomImpl.accept(OWLDataPropertyAssertionAxiomImpl.java:73)
	at org.coode.owlapi.rdf.model.AbstractTranslator.processIfAnonymous(AbstractTranslator.java:941)

palexander

2011-09-28 11:11:19,771 DEBUG [org.ncbo.stanford.obs.service.annotator.impl.AnnotatorServiceImpl] - textToAnnotate = [melanoma heart brain ]
2011-09-28 11:11:19,775 DEBUG [org.ncbo.stanford.obs.service.annotator.impl.AnnotatorServiceImpl] - mgrepResults size = 128
2011-09-28 11:11:19,775 DEBUG [org.ncbo.stanford.obs.service.annotator.impl.AnnotatorServiceImpl] - Computing direct annotations.....
2011-09-28 11:11:20,167 DEBUG [org.ncbo.stanford.obs.service.annotator.impl.AnnotatorServiceImpl] - [Duration for DIRECT Annotations for 'OBA_RESULT_9f10' = 00 hours, 00 minutes, 00 seconds.]
2011-09-28 11:11:20,167 DEBUG [org.ncbo.stanford.obs.service.annotator.impl.AnnotatorServiceImpl] - Computing ISA_CLOSURE expanded annotations.....
2011-09-28 11:11:21,159 DEBUG [org.ncbo.stanford.obs.service.annotator.impl.AnnotatorServiceImpl] - [Duration for ISA Annotations for 'OBA_RESULT_9f10' = 00 hours, 00 minutes, 00 seconds.]
2011-09-28 11:11:21,159 DEBUG [org.ncbo.stanford.obs.service.annotator.impl.AnnotatorServiceImpl

palexander

import os, sys, pygame, random, math

from pygame.locals import *

if not pygame.font: print 'Warning, fonts disabled'
if not pygame.mixer: print 'Warning, sound disabled'