bamtools: command not found

Maybe Your $PATH variable doesn't contain the default paths? echo $PATH should give something like:

[root@server ~]# echo $PATH
/usr/local/sbin:/usr/local/bin:/sbin:/bin:/usr/sbin:/usr/bin:/root/bin

If it's empty, You may set the PATH variable with this command

export PATH="/usr/local/sbin:/usr/local/bin:/sbin:/bin:/usr/sbin:/usr/bin:/root/bin"

On Debian possible default full paths are:

/usr/bin/bamtools - from package: bamtools

You may install the required package with command apt-get install {package}

Error in other languages:
bamtools: bevel nie gevind nie
bamtools: comandă negăsită
bamtools: comando não encontrado
bamtools: commande introuvable
bamtools: command not found
bamtools: käsku ei ole
bamtools: không tìm thấy lệnh
bamtools: komanda nerasta
bamtools: Kommando nicht gefunden.
bamtools: kommandot finns inte
bamtools: komut yok
bamtools: nie znaleziono polecenia
bamtools: níor aimsíodh an t-ordú
bamtools: no se encontró la orden
bamtools: no s'ha trobat l'ordre
bamtools: opdracht niet gevonden
bamtools: parancs nem található
bamtools: perintah tidak ditemukan
bamtools: príkaz nenájdený
bamtools: příkaz nenalezen
bamtools: команда не найдена
bamtools: командата не е открита
bamtools: 命令找不到
bamtools: コマンドが見つかりません