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# The length of read and quality string may be the same or differs by 1 (depending on whether the primer base has a corresponding quality value).
# The length of read and quality string may be the same or differs by 1 (depending on whether the primer base has a corresponding quality value).
#* <span style="color:red">Decided to require a quality score for the primer base.</span>
# Missing values are usually presented by "." or sometimes left as a blank " ".
# Missing values are usually presented by "." or sometimes left as a blank " ".
# Tag names for paired end reads may be the same (e.g. MAQ actually enforces that), and may be in the same file (e.g. BFAST require paired reads in the same file)
# Tag names for paired end reads may be the same (e.g. MAQ actually enforces that), and may be in the same file (e.g. BFAST require paired reads in the same file)
* It may be useful to report 2 types of information to the user: ERROR (critical failure) and WARNING (tolerable errors).
* It may be useful to report 2 types of information to the user: ERROR (critical failure) and WARNING (tolerable errors).
