Re: [Gmod-ajax] JBrowse2

[Colin <col...@gm...>]

Hi Ke

Basically &sessionTracks= added this to your session, and then you have to
turn the track on with &tracks= referring to the trackId from your
sessionTrack

Example URL

https://jbrowse.org/code/jb2/v1.6.4/?config=test_data/volvox/config.json&loc=ctgA:0-500&assembly=volvox&tracks=url_track&sessionTracks=[{%22type%22:%22FeatureTrack%22,%22trackId%22:%22url_track%22,%22name%22:%22URL%20track%22,%22assemblyNames%22:[%22volvox%22],%22adapter%22:{%22type%22:%22FromConfigAdapter%22,%22features%22:[{%22uniqueId%22:%22one%22,%22refName%22:%22ctgA%22,%22start%22:100,%22end%22:200,%22name%22:%22URL%20Feature%22}]}}]


-Colin

On Mon, Feb 7, 2022 at 2:20 PM Ke Jiang <bio...@gm...> wrote:

> Hi,
>
> It was great to see this feature! I was looking forward to it from the
> start of JBrowse2. Thanks to all the developers behind this! The URL works
> well but the &sessionTracks didn't quite work for me so far, here is an
> example:
>
>
> http://myjbrowse2sites/testsite/?config=config.json&loc=1:6000-7000&assembly=Porcine%20S.%20scrofa%20v11.1&sessionTracks=[{
> <http://myjbrowse2sites/testsite/?config=config.json&loc=1:6000-7000&assembly=Porcine%20S.%20scrofa%20v11.1&sessionTracks=[%7B>"type":"FeatureTrack","trackId":"url_track","name":"URL
> track","assemblyNames":["Porcine S. scrofa
> v11.1"],"adapter":{"type":"FromConfigAdapter","features":[{"uniqueId":"one","refName":"1","start":6100,"end":6200,"name":"Boris"}]}}]
>
> The url works properly up to the "sessionTracks" part, but there was no
> dynamic track loaded or shown. Anyone have any advice? Do I need to code
> the spaces in the configuration with "%20", too?
>
> Thanks!
>
> Ke
>
> On Fri, Feb 4, 2022 at 11:45 AM han...@ge... <
> han...@ge...> wrote:
>
>> Hi Colin,
>>     This is helpful for me. Thanks
>>
>> Best
>>
>> ------------------------------
>> Hang Yang, Ph.D.
>>
>> Institute of Genetics and Developmental Biology
>> Chinese Academy of Sciences
>> No.1 West Beichen Road, Chaoyang District
>> Beijing, China 100101
>>
>>
>> *From:* Colin <col...@gm...>
>> *Date:* 2022-02-03 05:25
>> *To:* han...@ge...
>> *CC:* gmod-ajax <gmo...@li...>
>> *Subject:* Re: [Gmod-ajax] JBrowse2
>> Hi there
>> JBrowse 1.6.4 merged this finally. Docs here
>> https://jbrowse.org/jb2/docs/urlparams/
>>
>> Let me know if that helps:)
>> -Colin
>>
>> On Tue, Jan 11, 2022 at 11:02 AM Colin <col...@gm...> wrote:
>>
>>> Hello,
>>> This feature has been implemented on a work-in-progress branch. It is
>>> planned to be released in an upcoming version soon
>>>
>>> https://github.com/GMOD/jbrowse-components/pull/2165
>>>
>>>
>>> If you want to try to preview the feature before the official release
>>> you can use the CLI command to test out the branch (it is otherwise up to
>>> date with other latest release features)
>>>
>>>     jbrowse create --branch nav_with_urlbar2 jbrowse2
>>>
>>> This will download the code from that branch to a folder named jbrowse2,
>>> and then you can use URLs like
>>>
>>>
>>> http://yoursite.com/jbrowse2/?loc=chr1:1-100&assembly=hg19&tracks=track_id1,track_id2
>>>
>>>
>>> -Colin
>>>
>>> On Tue, Jan 11, 2022 at 10:12 AM han...@ge... <
>>> han...@ge...> wrote:
>>>
>>>> Dear JBrowse developers,
>>>>     I am a user of the JBrowse. It's really a useful tool.
>>>>     I have a question about how to use URL query API in JBrowse2
>>>>  e.g. specifying ?loc=1:1..100.
>>>>     Thanks, Look forward to your reply.
>>>>
>>>> Best
>>>>
>>>> ------------------------------
>>>> Hang Yang, Ph.D.
>>>>
>>>> Institute of Genetics and Developmental Biology
>>>> Chinese Academy of Sciences
>>>> No.1 West Beichen Road, Chaoyang District
>>>> Beijing, China 100101
>>>> _______________________________________________
>>>> Gmod-ajax mailing list
>>>> Gmo...@li...
>>>> https://lists.sourceforge.net/lists/listinfo/gmod-ajax
>>>>
>>> _______________________________________________
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>