FLASH, Fast Length Adjustment of SHort reads, is a very accurate fast tool to merge paired-end reads from fragments that are shorter than twice the length of reads. The extended length of reads has a significant positive impact on improvement of genome assemblies.

• Version: 1.2.11
• Added: December, 2014
• Link: http://sourceforge.net/projects/flashpage/

• Show all available versions of flash

  module avail flash

• Load flash module:

  module load flash/1.2.11

• get quick help:

  flash --help

• Download flash src tarball, extract it & compile it

  wget "http://downloads.sourceforge.net/project/flashpage/FLASH-1.2.11.tar.gz?r=http%3A%2F%2Fsourceforge.net%2Fprojects%2Fflashpage%2F&ts=1418712841&use_mirror=tenet" -O FLASH-1.2.11.tar.gz
  tar -xvf FLASH-1.2.11.tar.gz
  cd FLASH-1.2.11
  make
  sudo mkdir -p /export/apps/FLASH/1.2.11
  sudo cp flash /export/apps/FLASH/1.2.11/

• flash module file

  #%Module1.0
  #####################################################################
  ##
  ## FLASH Modulefile
  ## By James Oguya, j.oguya@cgiar.org
  ## December, 2014
  ##
  
  set appname         FLASH
  set version         1.2.11
  set prefix          /export/apps/${appname}/${version}
  set exec_prefix     ${prefix}
  set url "http://sourceforge.net/projects/flashpage/"
  set msg "FLASH, Fast Length Adjustment of SHort reads, is a very accurate fast tool to merge paired-end reads from fragments that are shorter than twice the length of reads. The extended length of reads has a significant positive impact on improvement of genome assemblies..\nFLASH Official Site: $url\n"
  
  module-whatis $msg
  
  proc ModulesHelp { } {
      puts stderr "$msg"
  }
  
  conflict        FLASH
  
  prepend-path    PATH    ${exec_prefix}

• deploy the new module using ansible

  ansible-playbook site.yml -u provisioning -K -s --limit=compute --tags=module