I have figured out how to send data from my local Galaxy to my local GBrowse. Thanks for the help!

Now I would also like to go in the other direction and send data from GBrowse to Galaxy.

galaxy incoming = http://localhost/cgi-bin/gbrowse

When I export data to Galaxy I get the main page of galaxy but do not see any data. The url in my browser is http://localhost:8080/?URL=http://localhost/cgi-bin/gbrowse

Any ideas as to why I can't see the actual data? Shoudn't the url contain ref;start;end;type?

Thanks for your help, Liisa

From: Nicki Gray nicki.gray@imm.ox.ac.uk To: Liisa Koski liisa.koski@dnalandmarks.ca Cc: "galaxy-dev@lists.bx.psu.edu" galaxy-dev@lists.bx.psu.edu Date: 2011-02-10 11:40 Subject: Re: [galaxy-dev] Send data to GBrowse

Hi Liisa

When setting this up on our own local instance to get bigwig files to display in Gbrowse we edited:

1. universe_wsgi.ini 2. tool-data/shared/gbrowse/gbrowse_build_sites.txt 3. datatypes_conf.xml

so that it includes

<display file="gbrowse/gbrowse_wig.xml" />

4. and in display_applications/gbrowse/ make sure you have the relevant xml files

eg gbrowse_wig.xml, gbrowse_bigwig.xml

Nicki Gray MRC Molecular Haematology Unit

On 7 Feb 2011, at 19:03, Liisa Koski wrote:

Hi, I have just installed Galaxy and am trying to configure it to allow display of data on my local installation of GBrowse.

I have edited tool-data/shared/gbrowse/gbrowse_build_sites.txt (species http://domain.ca/cgi-bin/gbrowse/species species)

As well as universe_wsgi.ini (gbrowse_display_sites = species)

However I do not see a link in history items after I stop and start the server.

Is there something else I'm missing?

Thanks in advance for your help, Liisa<ATT00001.txt>