[Biojava-l] losing meta-info after multiple sequence alignment

Hannes Brandstätter-Müller biojava at hannes.oib.com
Thu Oct 6 07:32:59 UTC 2011

Hi again!

So, my MSA is now working, thanks for the help so far.

What I ran into now is that most of the meta-information of a Sequence
seems to get lost during the MSA step.

I'd like to attach the string from the fasta file (description,
header, whatever it is called) to the sequence and keep it attached
for further use after the MSA step.

1) shouldn't the fasta reader automatically populate this info? which
is the correct field (OriginalHeader or Description or something
2) the MSA step seems to throw away all meta info. I attached the
string as OriginalHeader before starting the MSA, and afterwards it is


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