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  • Can you provide an example of a few of your file entries please. In your question, not here as a comment Commented Mar 29, 2021 at 22:40
  • Use xargs when an argument list is too long. What's wrong with the first command? Commented Mar 29, 2021 at 23:10
  • The first command gives two errors: readlink: missing operand and cp: missing operand Commented Mar 30, 2021 at 0:53
  • no, neither spaces nor hyphens. They are fasta file names: e.g. file.1234.fasta Commented Mar 30, 2021 at 1:20