Closed metasoarous closed 10 years ago
Currently, --out-dir is not respected in the alignment output when specifying --write-masked (presumably this is the case with --write-pre-masked as well).
--out-dir
--write-masked
--write-pre-masked
A --prefix option could be helpful when using these flags in some cases as well.
--prefix
Currently,
--out-diris not respected in the alignment output when specifying--write-masked(presumably this is the case with--write-pre-maskedas well).A
--prefixoption could be helpful when using these flags in some cases as well.