bp_chaos_plot: 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_chaos_plot - from package: bioperl

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

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