This repository has been archived by the owner on Nov 7, 2021. It is now read-only.
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This PR switches the order of input preparation steps: now input sequence headers are truncated at the first whitespace character (if requested) before replacing special characters with underscores. This is more likely the intended effect of this option when given by a user, and it makes sure that the replacement of special characters is a means of last resort if
&
,=
etc. remain in the sequence headers.