[Bioc-devel] submitting a tiny data package (GmapGenome.Hsapiens.rCRS)

[Pages, Herve]

Hi guys,

OTOH indexMTGenome() only takes 20s on my laptop to create, install and 
load GmapGenome.Hsapiens.rCRS.

Note that the size on disk of GmapGenome.Hsapiens.rCRS is 449M which is 
surprising considering that the input of indexMTGenome() is a tiny 83K 
FASTA file. That's for the source tree. 'R CMD build' then produces a 
source tarball that is only 24M so is much reduced. Seems like the big 
files in GmapGenome.Hsapiens.rCRS are very sparse!

Anyway this seems to be a reference genome so maybe would best belong to 
AnnotationHub?

Cheers,

H.

On 11/9/18 08:42, Obenchain, Valerie wrote:
> Hi Tim,
>
> The options would be to make a data experiment package or put the data
> in ExperimentHub.
>
> Lori is our resident expert on these things but is out today. She'll be
> back next week and can provide more info.
>
> Valerie
>
>
> On 11/8/18 9:27 AM, Tim Triche, Jr. wrote:
>> What's the best/fastest way to do this? The package (MTseeker) will happily
>> build and install it for the user via the indexMTgenome() function, but
>> since I test for its presence prior to running examples, it seems like I
>> might as well have it available through BioC.
>>
>> Thanks,
>>
>> --t
>>
>> 	[[alternative HTML version deleted]]
>>
>> _______________________________________________
>> Bioc-devel using r-project.org mailing list
>> https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_mailman_listinfo_bioc-2Ddevel&d=DwIFAg&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=CJuHqYXh0XkBMrSjP3aaWmkdZALDlc5ycy4MRQVDkEc&s=OCFa2kt3VaWZzfqcvZGzIQr-61UL0B2ibC7J2EhbPfc&e=
>>
>
>
> This email message may contain legally privileged and/or confidential information.  If you are not the intended recipient(s), or the employee or agent responsible for the delivery of this message to the intended recipient(s), you are hereby notified that any disclosure, copying, distribution, or use of this email message is prohibited.  If you have received this message in error, please notify the sender immediately by e-mail and delete this email message from your computer. Thank you.
> _______________________________________________
> Bioc-devel using r-project.org mailing list
> https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_mailman_listinfo_bioc-2Ddevel&d=DwIFAg&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=CJuHqYXh0XkBMrSjP3aaWmkdZALDlc5ycy4MRQVDkEc&s=OCFa2kt3VaWZzfqcvZGzIQr-61UL0B2ibC7J2EhbPfc&e=

-- 
Hervé Pagès

Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N, M1-B514
P.O. Box 19024
Seattle, WA 98109-1024

E-mail: hpages using fredhutch.org
Phone:  (206) 667-5791
Fax:    (206) 667-1319