This sounds like a very nice feature! I'm curious to see how it works. ;)
For the bundling, I would suggest keeping it with the Mira binaries, as I
suspect without the dataset mira/mirabait will cough up an error? Since it
is actually a part of Mira in this case, and not a separate utility, it
seems appropriate to bundle. As Peter mentioned, linux package maintainers
usually compile from source, so they can separate it out again if they wish.
On Thu, Dec 17, 2015 at 2:53 AM, Peter Cock <dmarc-noreply@xxxxxxxxxxxxx>
wrote:
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,mid January. While the bump in version number is small, a lot has happened
I plan to release MIRA 4.9.6 soon, either shortly before Christmas or by
behind the scenes.
fish for or fish out rRNA sequences, something extremely useful in
One feature I have added is the ability of mira/mirabait to directly
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.
binaries or not?
The question I currently have: do I bundle this together with the MIRA
Mb
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
are more or less negligible sizes. However, I would like to have feedback
I’m strongly tending for bundling as in today’s world, 10 Mb or 20 Mb
on this just in case someone sees a larger inconvenience.
mailing list. For information on how to subscribe or unsubscribe, please
Bastien
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