bp_flanks: 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/bp_flanks - from package: bioperl

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

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