gbrowse_syn_load_alignment_database: 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
/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/gbrowse_syn_load_alignment_database - from package: gbrowse

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