clusterBed: 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 CentOS possible default full paths are:

/usr/bin/clusterBed - from package: BEDTools

You may install the required package with command yum install {package}

On Debian possible default full paths are:

/usr/bin/clusterBed - from package: BEDTools

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

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