Carrot root and DNA VCRU Bioinformatics USDA ARS Vegetable Crops Research Unit

This page was last updated on Wednesday, 04-Jan-2017 10:28:39 CST

Installation notes for RAPTR-SV version xxx

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Prerequisites

Installation

  1. $ ver="0.0.15"
  2. $ cd /programinstallers
  3. $ wget -N https://github.com/njdbickhart/RAPTR-SV/releases/download/v$ver/RAPTR-SV.jar
  4. Manual installation
    $ sudo cp -puv RAPTR-SV.jar /usr/local/bin/
  5. Make a wrapper
    $ cd /usr/local/bin
  6. $ sudo nano RAPTR-SV 
    #!/bin/bash
java -jar /usr/local/bin/RAPTR-SV.jar $@
  7. $ sudo chmod +x RAPTR-SV
  8. Test
    $ RAPTR-SV 
    
RAPTR-SV        A tool to cluster split and paired end reads
Version: 0.0.15
Usage: java -jar RAPTR-SV.jar [mode] [mode specific options]
Modes:
        preprocess      Interprets BAM files to generate metadata for "cluster" mode
        cluster         The mode that processes metadata generated from the main program