ucsc_genes2gff: 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/ucsc_genes2gff - from package: gbrowse

You may install the required package with command apt-get install {package}
Error in other languages:
ucsc_genes2gff: bevel nie gevind nie
ucsc_genes2gff: comandă negăsită
ucsc_genes2gff: comando não encontrado
ucsc_genes2gff: commande introuvable
ucsc_genes2gff: command not found
ucsc_genes2gff: käsku ei ole
ucsc_genes2gff: không tìm thấy lệnh
ucsc_genes2gff: komanda nerasta
ucsc_genes2gff: Kommando nicht gefunden.
ucsc_genes2gff: kommandot finns inte
ucsc_genes2gff: komut yok
ucsc_genes2gff: nie znaleziono polecenia
ucsc_genes2gff: níor aimsíodh an t-ordú
ucsc_genes2gff: no se encontró la orden
ucsc_genes2gff: no s'ha trobat l'ordre
ucsc_genes2gff: opdracht niet gevonden
ucsc_genes2gff: parancs nem található
ucsc_genes2gff: perintah tidak ditemukan
ucsc_genes2gff: príkaz nenájdený
ucsc_genes2gff: příkaz nenalezen
ucsc_genes2gff: команда не найдена
ucsc_genes2gff: командата не е открита
ucsc_genes2gff: 命令找不到
ucsc_genes2gff: コマンドが見つかりません