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  \subsection{Existing tools}  Many bioinformatics tools already address FASTA format inconsistencies. However many tools either halt and exit with an error (e.g. BioPerl) or can produce can reformatted output FASTA but cannot determine if there is a formatting issue to begin with (e.g. EMBOSS Seqret). Seqret \cite{PMID:10827456}).  The BioPerl module \verb|DB::Fasta| will halt if a FASTA is inconsistently wrapped or if a line of sequence is too long (as in an unwrapped genome FASTA). This has the disadvantage of requiring intervention to wrap and restart analysis. 
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