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# From https://raw.github.com/arq5x/bash_completion/master/samtools revision e931a8b46d9582672cc506e45ad9b4f4d6fbd743
_samtools()
{
local cur prev opts
COMPREPLY=()
cur="${COMP_WORDS[COMP_CWORD]}"
prev="${COMP_WORDS[COMP_CWORD-1]}"
opts="view sort mpileup depth
faidx tview index idxstats
fixmate flagstat calmd merge
rmdup reheader cat targetcut
phase pad2unpad"
case $prev in
samtools)
COMPREPLY=( $(compgen -W "${opts}" -- ${cur}) )
;;
esac
return 0
}
complete -F _samtools -o default samtools
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