fastaq_scaffolds_to_contigs: 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/bin/fastaq_scaffolds_to_contigs - from package: fastaq

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

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