Re: [Psidev-ms-dev] honey vs vinegar

[Mike C. <tu...@gm...>]

On 10/4/07, Brian Pratt <bri...@in...> wrote:
> I'm
> not comfortable with the idea that the format is intended for repositories
> instead of processing.  I'd think you'd want a repository to contain exactly
> the same artifacts that were processed lest anyone wonder later what
> differences may have existed in the various representations of the data.

If you're talking about mzML files vs (say) ms2 files, it makes sense
to me to archive the mzML file and then specify that version X of
mzML-to-ms2 was used to prepare the spectra for search.

If you're talking about mzML files vs RAW files, I'd still prefer to
archive the mzML files, even though they are conceptually downstream
from the RAW files.  Although both files are produced via magical
processes (secret vendor software), at least the mzML file follows a
standard and can be read and understood without further magic.

Mike