[ensembl-dev] configuring bigbed sources

[Anne Lyle]

Great - I’ll put it onto my ToDo list!

Regards

Anne


> On 10 Feb 2015, at 11:51, Olson, Andrew <olson at cshl.edu> wrote:
> 
> Thanks Anne. I can wait for this functionality until the next release.
> 
> Andrew
> 
>> On Feb 10, 2015, at 4:31 AM, Anne Lyle <annelyle at ebi.ac.uk> wrote:
>> 
>> Hi Andrew
>> 
>> Looking at our code, it appears to assume that internal BigBed sources are on a local file system, not served via http. I would need to make a change to the current webcode in order for your track to work.
>> 
>> We have a release due out early next month - let me know if this is soon enough for you.
>> 
>> Cheers
>> 
>> Anne
>> 
>> 
>> 
>>> On 9 Feb 2015, at 18:28, Olson, Andrew <olson at cshl.edu> wrote:
>>> 
>>> I have a bigbed track that works when you add it in the browser, but I’d like to configure my server to display it automatically. There is an error when using this configuration (excerpt below). I based this on a working bigwig configuration.
>>> 
>>> Can't use an undefined value as a HASH reference at /usr/local/ensembl-live/ensembl-webcode/modules/EnsEMBL/Web/Lazy/Object.pm line 21.\n
>>> 
>>> [ENSEMBL_INTERNAL_BIGBED_SOURCES]
>>> HClncRNAs = mrna_prot
>>> 
>>> [HClncRNAs]
>>> source_name = HC_lncRNAs
>>> description = High Confidence lncRNAs
>>> source_url = http://myserver/data/Zea_mays/HC-lncRNAs.bb<http://brie.cshl.edu/data/Zea_mays/HC-lncRNAs.bb>
>>> source_type = bigbed
>>> 
>>> 
>>> Any idea what I might be missing?
>>> 
>>> Andrew
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>> 
>> 
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