create-sofa-bridge.pl: 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/share/gmod/chado/modules/sequence/bridges/bin/create-sofa-bridge.pl - from package: libchado-perl
/usr/share/gmod/chado/src/chado/modules/sequence/bridges/bin/create-sofa-bridge.pl - from package: libchado-perl

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

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