Installation/Configuration

Minimum Hardware/OS Requirements
A 64 bit processor.
Any 64 bit OS.
A disk drive with 300GB of free space.
A minimum of 16GB of RAM if using PerM mapper OR 4GB RAM if using Bowtie mapper.

How to configure the VM

Run VM using VirtualBox 4 (Recommended)
Run VM using KVM


Run VM using VirtualBox 4

  1. VirtualBox You will need to install Virtual Box to run the virtual machine on your computer. If you already have VirtualBox installed, you can use that. Otherwise download the binary versions and install them from the Virtual Box Website.
  2. Download the Virtual Machine The virtual machine is around 1.0 GB in size. We recommend using a command line tool like “wget” to download the VM. Downloading the image using the browser sometimes corrupts the VM. Download Brain VM
  3. Configuring the VM
    1. Uncompress the image using the following command
      On Linux execute the following command:

      tar jxvf Brain.tar.bz2

      On Windows: Use a client like WinRar.

    2. Run VirtualBox
    3. Click on New
    4. Click Next
    5. Enter Details as shown and
    6. Click Next
    7. Specify a Base Memory Size and Click Next. RSEQ work-flow uses PerM mapper which requires a large amount of physical memory. The recommended amount is 16384MB. RSEQ wokflow also support Bowtie mapper which requires 4096MB of memory
      Note: The computer on which the VM is deployed will require memory (RAM) greater than 16384MB for PerM OR 4096MB for Bowtie.
    8. Click Next
    9. Click Choose existing hard disk
    10. Select the Debian-6-x86.vmdk file from the decompressed folder
    11. Click Next
    12. Click Finish
    13. Select BrainVM and Click Settings
    14. Click on Storage -> SATA Controller
    15. Click Add Hard Disk
    16. Click Choose Existing Disk
    17. Select the Brain.vmdk file from the decompressed folder and Click Open
    18. Setup Shared Folder:
      1. Click on Settings
      2. Click on Shared Folder, Click Add
      3. Click on Folder Path, Click Other and select any folder that you want to access inside the VM
      4. Specify “Folder Name” as self-data
      5. Click OK
      6. Click OK
  4. Click Start to Start you VM

Next Step: Quick Start – RSeq Workflow


Run VM using KVM

  1. Uncompress the image using the following command
    On Linux execute the following command:

    tar jxvf Brain.tar.bz2

    KVM is not supported on Windows

  2. kvm -m -vga std -net nic -net user -hda Debian-6-x86.vmdk -hdb Brain.vmdk

Next Step: Quick Start – RSeq Workflow