[Bioc-devel] epivizr: Chromosom region always set to default

[Julian Gehring]

Hi Hector,

Looks all fine now, thanks for the fast fix!

Best wishes
Julian


On 04.06.2014 12:37, Hector Corrada Bravo wrote:
> Hi Julian,
> 
> There was a bug after an update on the epiviz web app. A fix is now
> available on both devel and release github repos:
> https://github.com/epiviz/epivizr [2]
> 
> https://github.com/epiviz/epivizr-release [3]
> 
> Also available on svn and will be available on next build.
> 
>  Thanks!
> Hector
> 
> PS. Let me know how things go!
> 
> On Wed, Jun 4, 2014 at 2:41 PM, Julian Gehring
> <julian.gehring at embl.de> wrote:
> 
>> Hi,
>> 
>> When I try to start epivizr with a defined region of interest, the
>> region is always mapped to the default chromosome 11.
>> 
>> library(epivizr)
>> mz = startEpiviz(chr = "chr2", start = 1e5, end = 2e5)
>> 
>> yields the URL
>> 
>> 
> http://epiviz.cbcb.umd.edu/index.php?websocket-host[]=ws://localhost:7312&debug=false&chr=chr2&start=100000&end=200000&settings=default&ws=Y8kWxCO2Ajn&seqName=chr11&
>> [1]
>> 
>> and a view that is centered around chr11:100000-200000.  It seems
>> that the defaults overwrite the chromosome location, both in the
>> latest version of 'epivizr' of bioc-release and bioc-devel.  Am I
>> missing an important option to overwrite the default properly?
>> 
>> Best wishes
>> Julian
> 
> 
> 
> Links:
> ------
> [1]
> http://epiviz.cbcb.umd.edu/index.php?websocket-host[]=ws://localhost:7312&debug=false&chr=chr2&start=100000&end=200000&settings=default&ws=Y8kWxCO2Ajn&seqName=chr11&
> [2] https://github.com/epiviz/epivizr
> [3] https://github.com/epiviz/epivizr-release