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library(devtools)
install_url("http://s3.amazonaws.com/opencytoworkshop/BioC2015OpenCyto_1.0.tar.gz")

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# test

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library(devtools)
install_url("http://s3.amazonaws.com/vobencha-workshop/BioC2015LargeData_0.0.1.tar.gz")

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system('ssh-keygen -t rsa -C "[email protected]" -N "" -f ~/.ssh/id_rsa')
system("cat ~/.ssh/id_rsa.pub >> ~/.ssh/authorized_keys")

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<?xml version="1.0" encoding="UTF-8" ?>
<!--
 Licensed to the Apache Software Foundation (ASF) under one or more
 contributor license agreements.  See the NOTICE file distributed with
 this work for additional information regarding copyright ownership.
 The ASF licenses this file to You under the Apache License, Version 2.0
 (the "License"); you may not use this file except in compliance with
 the License.  You may obtain a copy of the License at

     http://www.apache.org/licenses/LICENSE-2.0

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#!/usr/bin/env ruby

require 'pp'

if ARGV.length != 1
    puts "usage: #{$0} manifest_file"
    exit
end

lines = File.readlines(ARGV.first)

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source("https://bioconductor.org/biocLite.R")
biocLite(c("AnnotationHub", "rtracklayer"))
library(AnnotationHub)
ah <- AnnotationHub()
ah <- subset(ah, species == "Homo sapiens")
qhs <- query(ah, "RefSeq")
genes <- qhs[qhs$genome == "hg19" & qhs$title == "RefSeq Genes"]
genes <- qhs[[1]]

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# first set of machines
machine1:
    image: "dtenenba/cytoscape3"
    ports:
     - "9291:1234"
machine2:
    image: "dtenenba/cytoscape3"
    ports:
     - "9292:1234"
machine3:

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# for the release announcement, a list of new package names and their Description fields
# start with 'pkgs' which is a vector of new package names
# manually generate this by diffing the last 2 manifests

f <- function(pkg) {
  desc <- sprintf("%s/DESCRIPTION", pkg)
  dcf <- read.dcf(desc)
  desc <- dcf[,'Description']
  names(desc) <- pkg
  desc

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require 'aws-sdk'
require 'time'
require 'yaml'
require 'httparty'

Aws.config.update({region: 'us-east-1', credentials: Aws::Credentials.new('access_key', 'secret_key')})
ec2 = Aws::EC2::Client.new(region: 'us-east-1')

def get_amis(ec2)