bed_to_juncs: 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/bed_to_juncs - from package: tophat

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

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