[ensembl-dev] GRCH37 archive

Fri Jun 5 10:16:34 BST 2020

Hi Wolf,

We setup the grch37-archive.ensembl.org site recently to coincide with 
the removal of non-human data from grch37.ensembl.org. We decided to do 
this in response to feedback we received when consulting users about the 
removal of these data 
(http://www.ensembl.info/2019/09/19/simplifying-our-grch37-services/).

As with other *.archive.ensembl.org sites, the data and API version on 
this are frozen and will not change. This is in contrast to 
grch37.ensembl.org which as Thomas says has regular API updates and can 
have minor data updates.

Regards,

Steve

On 05/06/2020 08:57, Wolf Beat wrote:
> One clarification to your answer Thomas.
>
>
> I have a feeling you are refering to the
>
> http://grch37.ensembl.org/index.html
>
>
> Website when talking about the archive, where i'm talking about:
>
> https://grch37-archive.ensembl.org/index.html
>
>
> Notive the difference in the URL naming scheme to the current ensembl version archive from the same date:
>
> http://jan2020.archive.ensembl.org/index.html
>
>
> The current ensembl archive clearly indicates that it is the january 2020 archive. Which means, even in 5 years (if it is up that long), it is going to run with the ensembl 2020 release.
>
>
> The grch37-archive version on the other hand, does at least from an URL naming scheme not give such assurances, making it to some degree not very useful, as it is not clear if it can be used as an actual archives, like the main ensembl archives.
>
>
> Sorry for the second email, but i think this clarification was necessary
>
>
> Kind regards
>
>
> Beat Wolf
>
>
>
>
>
>
> Dr Beat Wolf, PhD ▪ Lecturer & Researcher ▪ Member of iCoSys Institute
> University of Applied Sciences and Arts Western Switzerland ▪ Pérolles 80 ▪ CH-1700 Fribourg
> Member of University of Applied Sciences of Western Switzerland
> https://www.heia-fr.ch<https://eia-fr.ch/> ▪ <http://humantech.institute/> https://icosys.ch/
>
>
>
> ________________________________
> From: Dev <dev-bounces at ensembl.org> on behalf of Thomas Juettemann <juettemann at ebi.ac.uk>
> Sent: Friday, June 5, 2020 9:42:54 AM
> To: Ensembl developers list
> Subject: Re: [ensembl-dev] GRCH37 archive
>
> Hello Beat,
>
> Thank you for using our resources. It looks like no one has gotten back to you yet, apologies for that.
> I will try my best to answer your questions, to be save I cc’ed Andy, who is more knowledgable about the topic.
>
> Please note that the best way to get any question about Ensembl answered is emailing
> helpdesk at ensembl.org
>
> As far as I am aware, the archive site will stay for the foreseeable future.
> We created it when we updated the main website to use the current assembly, and have kept it stable since then.
>
> We are doing occasional updates, see these links for more details:
> http://www.ensembl.info/2015/03/31/first-update-of-the-ensembl-grch37-site/
> http://www.ensembl.info/2015/10/08/second-update-of-the-ensembl-grch37-site/
>
> A bigger change is the removal of all non-human data:
> http://www.ensembl.info/2019/09/19/simplifying-our-grch37-services/
>
> To answer your short question:
> Yes, the version will change, but I am unsure how often the database is patched.  Andy can hopefully add more background here.
>
> Best wishes,
> Thomas
>
> —
> Thomas Juettemann
> Ensembl Regulation
>
> European Molecular Biology Laboratory - European Bioinformatics Institute (EMBL-EBI)
> Wellcome Genome Campus
> Hinxton, Cambridge
> CB10 1SD
> United Kingdom
>
>
> On 28 May 2020, at 17:36, Wolf Beat <Beat.Wolf at hefr.ch> wrote:
>
> Hi,
>
>
> i have a question about the ensembl Grch37 archive:
>
>
> https://grch37-archive.ensembl.org/index.html
>
>
> My question is, is this a stable archive? For a very long time i have been looking for a stable archive that is more up to date than the february 2014 version, and i'm very happy to see that now there is one!
>
> But what i'm worried is that this is not actually a stable archive, as there is no version name or date in the URL. Does this mean, that this archive will be updated periodically going forward?
>
>
> I'm asking because i'm in the usecase where i need a stable endpoint of ensembl where i'm sure the API will not change. For the Grch38 version i can periodically update my code to support the latest versions, as there are fixed stable archive versions. Until now that was not possible will Grch37.
>
>
> So in short:
>
> Is  the https://grch37-archive.ensembl.org/index.html archive stable, or will the version (99) behind that URL change from time to time?
>
>
> Kind regards
>
>
> Beat Wolf
>
>
>
>
>
>
> Dr Beat Wolf, PhD ▪ Lecturer & Researcher ▪ Member of iCoSys Institute
> University of Applied Sciences and Arts Western Switzerland ▪ Pérolles 80 ▪ CH-1700 Fribourg
> Member of University of Applied Sciences of Western Switzerland
> https://www.heia-fr.ch<https://eia-fr.ch/> ▪ <http://humantech.institute/> https://icosys.ch/
>
>
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