Installing the hg19 Reference Genome Nirvana Annotation Database

1. Ensure that the DNA Amplicon Module version installed is version 1.1.0 or greater. This Nirvana Annotation Database is only 
   compatible with version 1.1.0 or greater.

2. If present, Remove the following folder from your human hg19 genome:
   "<Local Run Manager Reference Genome Repository>\Homo_sapiens\UCSC\hg19\Annotation\Nirvana"

   (default reference genome repository: "C:\Illumina\Genomes\")
   (default reference genome repository MiSeq 2.x: "C:\Illumina\MiSeq Reporter\Genomes")

3. Download the "Nirvana.zip" file from the Local Run Manager Software Downloads Page.

4. Right click on the "Nirvana.zip" file and select "Extract All..."

5. In the "Extract Compressed (Zipped) Folders" dialog window, set the folder 
   path where files will be extracted to the following location: 
   "<Local Run Manager Reference Genome Repository>\Homo_sapiens\UCSC\hg19\Annotation\"

6. Once the extraction has completed, there should now be a 
   <Local Run Manager Reference Genome Repository>\Homo_sapiens\UCSC\hg19\Annotation\Nirvana folder 
   
   Within the Nirvana folder, the following folders should be present 
   <Local Run Manager Reference Genome Repository>\Homo_sapiens\UCSC\hg19\Annotation\Nirvana\Cache\26.
   <Local Run Manager Reference Genome Repository>\Homo_sapiens\UCSC\hg19\Annotation\Nirvana\SupplementaryDatabase\44
   <Local Run Manager Reference Genome Repository>\Homo_sapiens\UCSC\hg19\Annotation\Nirvana\Reference\5

   (default reference genome repository: "C:\Illumina\Genomes\").
   (default reference genome repository MiSeq 2.x: "C:\Illumina\MiSeq Reporter\Genomes")
   
7. Delete the "Nirvana.zip" file to save disk space.