[DAS] Dalliance: a new genome DAS client
Leyla Garcia
ljgarcia at ebi.ac.uk
Thu Aug 5 08:42:34 UTC 2010
Hi Suzanna,
Yes, I am in the DAS mailing list.
Best,
Leyla
On 04/08/2010 20:29, Suzanna Lewis wrote:
> Hi Leyla,
>
> Are you on the DAS mailing list? For some reason I only see your messages in someone else's reply, but nothing directly from you.
>
> On Aug 4, 2010, at 12:26 PM, Lincoln Stein wrote:
>
>
>> Thanks for the pointers. I've added CORS capabilities to the GBrowse DAS
>> server.
>>
>> Lincoln
>>
>> On Wed, Aug 4, 2010 at 11:03 AM, Leyla Garcia<ljgarcia at ebi.ac.uk> wrote:
>>
>>
>>> Thanks Andy and Jonathan,
>>>
>>> The CORS header is already in MyDAS and it will be available for the next
>>> release, which will be soon :)
>>> I will check the specification about Access-Control-Expose-Headers
>>>
>>> Jonathan, I am checking the response headers with an add-on in Firefox. I
>>> tried the first URL in the dasregistry link you send me, i.e.
>>> http://cathdb.info:9000/das/cath_pdb/features?segment=5pti
>>> but I do not see the Access-Control-Allow-Origin header there. So I am not
>>> sure what I missing...
>>>
>>> Leyla
>>>
>>>
>>>
>>> On 04/08/2010 15:54, Jonathan Warren wrote:
>>>
>>>
>>>> resp.setHeader("Access-Control-Allow-Origin", "*");
>>>>
>>>> On 4 Aug 2010, at 15:51, Jonathan Warren wrote:
>>>>
>>>> This url list 150 das sources that implement cors - see traffic light on
>>>>
>>>>> the end:
>>>>>
>>>>>
>>>>> http://www.dasregistry.org/listServices.jsp?organism=any&CSName=any&CSTypes=any&capabilities=cors&labels=any&spec=any&cmd=find<
>>>>> http://www.dasregistry.org/listServices.jsp?organism=any&CSName=any&CSTypes=any&capabilities=cors&labels=any&spec=any&cmd=find
>>>>>
>>>>>>
>>>>>
>>>>> You can check the headers responses for any of their valid responses.
>>>>>
>>>>> If you want some java code that adds this functionality to MyDAS I can
>>>>> send it to you...
>>>>>
>>>>> On 4 Aug 2010, at 15:03, Leyla Garcia wrote:
>>>>>
>>>>> About CORS,
>>>>>
>>>>>>
>>>>>>> If you run your own DAS servers and
>>>>>>> don't list them in the registry, you'll need to check for CORS
>>>>>>>
>>>>>> compatibility
>>>>>>
>>>>>>> yourself. The latest versions of Proserver and Dazzle should both be
>>>>>>>
>>>>>> okay.
>>>>>>
>>>>>> If I am not mistaken, Proserver already implements CORS headers?
>>>>>> Andy, could you please send me a link of a Proserver server that
>>>>>> implements this?
>>>>>>
>>>>>> Thanks,
>>>>>>
>>>>>> Leyla
>>>>>>
>>>>>> On 03/08/2010 21:52, Jonathan Warren wrote:
>>>>>>
>>>>>>
>>>>>>> This is very cool - I had a look the other day. Was wondering why some
>>>>>>> sources could be attached and some can't....
>>>>>>> Best browser experience yet by far I'd say.
>>>>>>>
>>>>>>> No problems about adding CORS support - for the record I'm very happy
>>>>>>> to implement new capabilities testing and other suggestions to the registry
>>>>>>> from anyone who cares to drop me a line. Especially if it's going to enhance
>>>>>>> and promote the use of the registry :)
>>>>>>>
>>>>>>>
>>>>>>> On 3 Aug 2010, at 20:41, Thomas Down wrote:
>>>>>>>
>>>>>>> As some of you already know, I've been experimenting recently with a
>>>>>>>
>>>>>>>> web-based DAS client for genomic data. It's still in
>>>>>>>> a unashamedly prototypical state (in particular, some of the popups
>>>>>>>> and
>>>>>>>> configuration stuff is outright clunky, and we know it!), but we're
>>>>>>>> starting
>>>>>>>> to find it quite useful, and would be interested to receive more
>>>>>>>> feedback.
>>>>>>>> So if you're curious, you can try it here:
>>>>>>>>
>>>>>>>> http://www.biodalliance.org/human/ncbi36/
>>>>>>>>
>>>>>>>> It's a fully-fledged DAS/1.53 client (with a few bits of DAS/1.6, and
>>>>>>>> hopefully rather more coming soon), but has one major caveat: since
>>>>>>>> it's
>>>>>>>> pure Javascript code running in your web browser, there are
>>>>>>>> limitations to
>>>>>>>> which servers it can connect to. Specifically, it will only work with
>>>>>>>> DAS
>>>>>>>> servers that implement the W3C cross-origin resource sharing model
>>>>>>>> (which
>>>>>>>> has been discussed on this list before, but drop me a line if you've
>>>>>>>> got any
>>>>>>>> questions). What does this mean in practice? If you're adding
>>>>>>>> datasources
>>>>>>>> from the registry, things are simple because Dalliance will only allow
>>>>>>>> you
>>>>>>>> to add CORS-enabled sources (a huge thanks to Jonathan Warren for
>>>>>>>> adding
>>>>>>>> some support for this in the registry). If you run your own DAS
>>>>>>>> servers and
>>>>>>>> don't list them in the registry, you'll need to check for CORS
>>>>>>>> compatibility
>>>>>>>> yourself. The latest versions of Proserver and Dazzle should both be
>>>>>>>> okay.
>>>>>>>>
>>>>>>>> All comments, suggestions, and bug reports are welcome!
>>>>>>>>
>>>>>>>> Thomas Down.
>>>>>>>> _______________________________________________
>>>>>>>> DAS mailing list
>>>>>>>> DAS at lists.open-bio.org
>>>>>>>> http://lists.open-bio.org/mailman/listinfo/das
>>>>>>>>
>>>>>>>>
>>>>>>> Jonathan Warren
>>>>>>> Senior Developer and DAS coordinator
>>>>>>> blog: http://biodasman.wordpress.com/
>>>>>>> jw12 at sanger.ac.uk
>>>>>>> Ext: 2314
>>>>>>> Telephone: 01223 492314
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>> _______________________________________________
>>>>>> DAS mailing list
>>>>>> DAS at lists.open-bio.org
>>>>>> http://lists.open-bio.org/mailman/listinfo/das
>>>>>>
>>>>>>
>>>>> Jonathan Warren
>>>>> Senior Developer and DAS coordinator
>>>>> blog: http://biodasman.wordpress.com/
>>>>> jw12 at sanger.ac.uk
>>>>> Ext: 2314
>>>>> Telephone: 01223 492314
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>> Jonathan Warren
>>>> Senior Developer and DAS coordinator
>>>> blog: http://biodasman.wordpress.com/
>>>> jw12 at sanger.ac.uk<mailto:jw12 at sanger.ac.uk>
>>>>
>>>> Ext: 2314
>>>> Telephone: 01223 492314
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>> -- The Wellcome Trust Sanger Institute is operated by Genome Research
>>>> Limited, a charity registered in England with number 1021457 and a company
>>>> registered in England with number 2742969, whose registered office is 215
>>>> Euston Road, London, NW1 2BE.
>>>>
>>>>
>>> _______________________________________________
>>> DAS mailing list
>>> DAS at lists.open-bio.org
>>> http://lists.open-bio.org/mailman/listinfo/das
>>>
>>>
>>
>>
>> --
>> Lincoln D. Stein
>> Director, Informatics and Biocomputing Platform
>> Ontario Institute for Cancer Research
>> 101 College St., Suite 800
>> Toronto, ON, Canada M5G0A3
>> 416 673-8514
>> Assistant: Renata Musa<Renata.Musa at oicr.on.ca>
>> _______________________________________________
>> DAS mailing list
>> DAS at lists.open-bio.org
>> http://lists.open-bio.org/mailman/listinfo/das
>>
>>
>
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