Re: [Gmod-ajax] jBrowse set up issue

[Scott C. <sc...@sc...>]

Hi Chin-Rang,

I have a few suggestions: First, if you are only looking to display your
RNASeq reads locally, you'll probably find it a lot easier to use the
JBrowse desktop application: https://jbrowse.org/docs/jbrowse_desktop.html
(download at http://jbrowse.org/blog/2019/07/11/jbrowse-1-16-6.html).  It's
JBrowse running in an Electron wrapper, so you don't have to deal with a
webserver at all.

On the other hand if your goal is to get a server running so you can share
it with lab mates or the like, you can continue down the road using a
webserver.  I have no experience trying to set up JBrowse on a Windows
machine.  While the webserver part should work fine, I would guess that
you're likely to run into problems running the processing perl scripts like
prepare-refseqs.pl and flatfile-to-json.pl, but that's a step or two away
at the moment.  To address your immediate problem, please open your
javascript console to see if there are any errors that might help us figure
out what's going on.

Good luck,
Scott


On Tue, Aug 13, 2019 at 10:07 AM Yang, Chin-Rang (NIH/NHLBI) [E] via
Gmod-ajax <gmo...@li...> wrote:

> Hi,
>
>
>
> I am trying to setup jBrowse on a Apache server at the local Windows 10
> workstation to display my RNA-Seq data.
>
>
>
> The Apache server is running OK. Test web page shows “It works”.
>
>
>
> I put the Jbrowse folder in the Apache htdocs folder.
>
>
>
> When I run
>
> http://localhost/jbrowse/
>
> the web page shows “ Loading …”
>
>
>
> I tried the “volvox” example, get tracks.conf, volvox.fa, volvox.fa.fai in
> the data folder.
>
> Then run
>
> http://localhost/jbrowse/?data=data
>
> the web page shows “Loading …”, but nothing loaded …
>
>
>
> I am wondering if other people have the similar issue.
>
> Do I need to set jbrowse up in a really working web server, not a local
> one?
>
>
>
> Please advise. Thank you.
>
>
>
> Chin-Rang
>
>
> _______________________________________________
> Gmod-ajax mailing list
> Gmo...@li...
> https://lists.sourceforge.net/lists/listinfo/gmod-ajax
>


-- 
------------------------------------------------------------------------
Scott Cain, Ph. D.                                   scott at scottcain dot
net
GMOD Coordinator (http://gmod.org/)                     216-392-3087
Ontario Institute for Cancer Research