Hi Bastien,
This is an interesting idea - and given it is only 10MB, I'd vote
with the other voices for bundling it with the binaries as one
download for the typical MIRA user.
I would expect the Debian Med team to want to split it out as
a separate sub-package, they already do this a bit, e.g.
https://packages.debian.org/source/sid/mira
Shall we forward this to their mailing list for comment/warning?
I presume the new rRNA database would be a self contained
file or directory? The Debian (and other Linux distro) packagers
may have some more specific guidance/preference here.
Regards,
Peter
On Thu, Dec 17, 2015 at 4:11 AM, Bastien Chevreux <bach@xxxxxxxxxxxx> wrote:
Dear all,
I plan to release MIRA 4.9.6 soon, either shortly before Christmas or by mid
January. While the bump in version number is small, a lot has happened behind
the scenes.
One feature I have added is the ability of mira/mirabait to directly fish for
or fish out rRNA sequences, something extremely useful in RST/RNASeq
assemblies. There’s just a slight problem: the dataset for this functionality
is ~10Mb. Not several gigabytes like RFAM, Silva or other rRNA databases,
just 10 megabytes … and with that one should be able to recognise rRNA reads
for the vast majority of sequenced organisms on this planet.
The question I currently have: do I bundle this together with the MIRA
binaries or not?
Pro:
- easy install for novices (and forgetful ppl)
- easy for package and system maintainers
Con:
- the size of the binary distributable package doubles from 10 Mb to 20 Mb
I’m strongly tending for bundling as in today’s world, 10 Mb or 20 Mb are
more or less negligible sizes. However, I would like to have feedback on this
just in case someone sees a larger inconvenience.
Bastien
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