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Cloud Computing

Cloud Computing. Mick Watson Director of ARK-Genomics The Roslin Institute. Structure. What is a computer Desktops / servers / clusters Clients / servers Virtualisation The Cloud Accessing the Amazon cloud Costs etc. What is a computer?. What is a server?. What is a cluster?.

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Cloud Computing

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  1. Cloud Computing Mick Watson Director of ARK-Genomics The Roslin Institute

  2. Structure • What is a computer • Desktops / servers / clusters • Clients / servers • Virtualisation • The Cloud • Accessing the Amazon cloud • Costs etc

  3. What is a computer?

  4. What is a server?

  5. What is a cluster? • A cluster is a connected set of computers (nodes) • Any job can be run on any of the nodes • A server may be a single PC, it may be cluster

  6. An operating system? • An OS is the software that runs the computer: • E.g. Windows • E.g. Linux • E.g. Mac OSX • E.g. Android • E.g. Solaris • E.g. iOS

  7. Virtualisation • You can run an entire computer inside a computer • Take OS and data and all running processes • Create an “image” • Recreate that image inside another PC • Access it as if it was a (physical) normal PC • http://en.wikipedia.org/wiki/Virtualization

  8. What is “the cloud”? • There is not just one! • Amazon EC2 • Rackspace • Etc • “The Cloud” refers to a large cluster of computers, in which you can create, for a fee, as many virtual computers as you like

  9. Amazon EC2

  10. We will use Amazon EC2 • Terminology: • EC = “Elastic Compute” • Image – a preconfigured computer image. Like a template. • Instance – an virtual version of an image that you can log in to and use • Select a pre-configured Amazon Machine Image (AMI) to get up and running immediately. • Or create an AMI containing your applications, libraries, data, and associated configuration settings. • Configure security and network access • Choose which instance type(s) you want, then start, terminate, and monitor as many instances as you like. • Pay only for the resources that you actually consume, like instance-hours or data transfer • Close down the image(s) when finished

  11. Linux • Linux refers to an entire family of operating systems: • Red Hat • Ubuntu • Debian etc • Linux is free • Many of the computers that power the internet run Linux • Almost allbioinformaticians use it • Powerful, extendable and open

  12. The power is the command line • Don’t panic!

  13. BioLinux • http://nebc.nerc.ac.uk/tools/bio-linux/bio-linux-6.0 • A Linux operating system designed for bioinformatics • More than 500 bioinformatics software programs installed on top of Ubuntu 10.4 base • There are BioLinux AMIs on EC2 – CloudBioLinux • We have created our own AMI based on CloudBioLinux

  14. How powerful? • Once you have selected the “type” of computer (AMI) you must then select the size and power • M1 Small Instance (Default) 1.7 GiB of memory, 1 EC2 Compute Unit (1 virtual core with 1 EC2 Compute Unit), 160 GB of local instance storage, 32-bit or 64-bit platform • M1 Medium Instance 3.75 GiB of memory, 2 EC2 Compute Units (1 virtual core with 2 EC2 Compute Units each), 410 GB of local instance storage, 32-bit or 64-bit platform • M1 Large Instance 7.5 GiB of memory, 4 EC2 Compute Units (2 virtual cores with 2 EC2 Compute Units each), 850 GB of local instance storage, 64-bit platform • M1 Extra Large Instance 15 GiB of memory, 8 EC2 Compute Units (4 virtual cores with 2 EC2 Compute Units each), 1690 GB of local instance storage, 64-bit platform • M3 Extra Large Instance 15 GiB of memory, 13 EC2 Compute Units (4 virtual cores with 3.25 EC2 Compute Units each), EBS storage only, 64-bit platform • M3 Double Extra Large Instance 30 GiB of memory, 26 EC2 Compute Units (8 virtual cores with 3.25 EC2 Compute Units each), EBS storage only, 64-bit platform

  15. How powerful? • Once you have selected the “type” of computer (AMI) you must then select the size and power • Micro Instance 613 MiB of memory, up to 2 ECUs (for short periodic bursts), EBS storage only, 32-bit or 64-bit platform (free) • High-Memory Extra Large Instance 17.1 GiB memory, 6.5 ECU (2 virtual cores with 3.25 EC2 Compute Units each), 420 GB of local instance storage, 64-bit platform • High-Memory Double Extra Large Instance 34.2 GiB of memory, 13 EC2 Compute Units (4 virtual cores with 3.25 EC2 Compute Units each), 850 GB of local instance storage, 64-bit platform • High-Memory Quadruple Extra Large Instance 68.4 GiB of memory, 26 EC2 Compute Units (8 virtual cores with 3.25 EC2 Compute Units each), 1690 GB of local instance storage, 64-bit platform • High-CPU Medium Instance 1.7 GiB of memory, 5 EC2 Compute Units (2 virtual cores with 2.5 EC2 Compute Units each), 350 GB of local instance storage, 32-bit or 64-bit platform • High-CPU Extra Large Instance 7 GiB of memory, 20 EC2 Compute Units (8 virtual cores with 2.5 EC2 Compute Units each), 1690 GB of local instance storage, 64-bit platform

  16. How powerful? • Once you have selected the “type” of computer (AMI) you must then select the size and power • Cluster Compute Quadruple Extra Large 23 GiB memory, 33.5 EC2 Compute Units, 1690 GB of local instance storage, 64-bit platform, 10 Gigabit Ethernet • Cluster Compute Eight Extra Large 60.5 GiB memory, 88 EC2 Compute Units, 3370 GB of local instance storage, 64-bit platform, 10 Gigabit Ethernet • Cluster GPU Quadruple Extra Large 22 GiB memory, 33.5 EC2 Compute Units, 2 x NVIDIA Tesla “Fermi” M2050 GPUs, 1690 GB of local instance storage, 64-bit platform, 10 Gigabit Ethernet • High I/O Quadruple Extra Large 60.5 GiB memory, 35 EC2 Compute Units, 2 * 1024 GB of SSD-based local instance storage, 64-bit platform, 10 Gigabit Ethernet

  17. The practical

  18. http://www.ark-genomics.org/events-online-training/eu-training-coursehttp://www.ark-genomics.org/events-online-training/eu-training-course • In this course you will start a new Amazon EC2 instance and begin to learn some of the essentials of the linux command-line • Don’t panic.

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