pymol: 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 CentOS possible default full paths are:

/usr/bin/pymol - from package: pymol

You may install the required package with command yum install {package}

On Debian possible default full paths are:

/usr/bin/pymol - from package: pymol

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

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