pads_backannotate: command not found

Have You tried accessing the binary with the full path?

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

[root@server ~]# echo $PATH

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/pads_backannotate - from package: geda-utils

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