# Comma separated list of bx / UCSC / gbrowse / GeneTrack browsers to use for viewing
bx_display_sites = main
ucsc_display_sites = main,test,archaea,ucla
gbrowse_display_sites = main,test,tair
Next, make the setting in ~/tool-data/shared/gbrowse/gbrowse_build_sites.txt - here are the sample settings ( note that each corresponds to what you configured in your universe_wsgi.ini file ). White spaces are tabs in this file, and the first value in each line ( e.g., main, test ) is the link label that points to the GBrowse site whose URL is in the 2nd column. The 3rd column of each line is the valid builds for which the link will be displayed ( see below ). Note that the sample builds are no longer valid, they should be value slike ce2, ce3, etc - see ~/tool-data/shared/ucsc/builds.txt for valid values ).
# wormbase sites / supported genomes
main http://www.wormbase.org/db/seq/gbgff/c_elegans/ c_elegans,c_briggsae,c_remanei,c_brenneri,c_japonica,p_pristionchus,b_malayi
test http://dev.wormbase.org/db/seq/gbrowse/c_elegans/ c_elegans,c_briggsae,c_remanei,c_brenneri,c_japonica,p_pristionchus,b_malayi
When you have the correct configuration settings, you'll see a link in history items ( here is an example - display in Wormbase main ) whose genome build matches one of the configured builds.
On Mar 12, 2010, at 3:27 AM, Jelle Scholtalbers wrote:
Hi,
I would like to be able to send data to my GBrowse2.0 instance. I have
been trying some things based on the Epigraph tool but I can't seem to
get it work. Below is a mail from Lincoln that was send to the GBrowse
mailinglist about how to send data to GBrowse.
If its possible, how should I configure the tool?
Cheers,
Jelle
--------
In version 2.0 it is relatively easy. POST to the GBrowse URL (including the
datasource part of the URL) with the following parameters:
- action="upload_file"
- file=<a multipart/form-encoded file upload>
- upload_id=<any numeric id of your choosing>
- id=<the id of the user that you are uploading to>
Alternatively to providing the "file" argument you can provide a "data"
argument with the uploaded data provided directly.
The "id" argument indicates the id of the user that you are uploading for.
You can get this ID by bookmarking a page -- the "id" parameter records the
info. Alternatively, if you don't provide an ID, GBrowse will generate it
for you and return the ID in the response cookie, in an argument called
"gbrowse_sess".
If you have administrator's mode enabled, then you can provide the ID of the
administrator and the uploaded file will become part of the public set of
tracks.
Lincoln
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