Linking from Galaxy to UCSC

#CHEN GUOHAO#

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Apr 24, 2015, 12:17:02 PM4/24/15

to gen...@soe.ucsc.edu

Dear admins

I got my data uploaded to Galaxy (It is already sorted)

But when I clicked on "display at UCSC main", i got linked UCSC browser with an error stating below:

May I know what could be the problem?

Regards,

Julius

Luvina Guruvadoo

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Apr 27, 2015, 5:03:55 PM4/27/15

to #CHEN GUOHAO#, gen...@soe.ucsc.edu

Hello Julius,

Thank you for contacting us. We were able to successfully upload a bam file on Galaxy's site and view it in the Genome Browser. The error you are receiving suggests you might be using a different (local) site and not Galaxy's main site: https://usegalaxy.org/. Are you still experiencing the issue?

If you have any further questions, please reply to gen...@soe.ucsc.edu. All messages sent to that address are archived on a publicly-accessible forum. If your question includes sensitive data, you may send it instead to genom...@soe.ucsc.edu.

- - -
Luvina Guruvadoo
UCSC Genome Bioinformatics Group

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#CHEN GUOHAO#

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Apr 28, 2015, 12:32:54 PM4/28/15

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Dear admins

I got my data uploaded to my local Galaxy (It is already sorted)

Jonathan Casper

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Apr 28, 2015, 4:47:36 PM4/28/15

to #CHEN GUOHAO#, gen...@soe.ucsc.edu

Hello Julius,

It looks like the problem is related to the configuration of your local Galaxy mirror. The IP address that your Galaxy server sends to UCSC (172.21.144.160) is part of an address block reserved for private local networks. You will need to configure your Galaxy server to provide UCSC with a public-facing IP address for us to be able to load your data. We suggest that you talk to the support staff for Galaxy about how to do this.

I hope this is helpful. If you have any further questions, please reply to gen...@soe.ucsc.edu or genome...@soe.ucsc.edu. Questions sent to those addresses will be archived in publicly-accessible forums for the benefit of other users. If your question contains sensitive data, you may send it instead to genom...@soe.ucsc.edu.

--
Jonathan Casper
UCSC Genome Bioinformatics Group

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#CHEN GUOHAO#

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Apr 29, 2015, 12:02:06 PM4/29/15

to Jonathan Casper, gen...@soe.ucsc.edu

Hi Jonathan

If I leverage on UCSC Genome Browser In a Box, and I want to present the data in Galaxy to the Genome Browser, how can I do it?

Best,

Julius

From: Jonathan Casper <jca...@soe.ucsc.edu>
Sent: Wednesday, April 29, 2015 4:47 AM
To: #CHEN GUOHAO#
Cc: gen...@soe.ucsc.edu
Subject: Re: [genome] Linking from Galaxy to UCSC

Luvina Guruvadoo

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Apr 29, 2015, 3:36:56 PM4/29/15

to #CHEN GUOHAO#, Jonathan Casper, gen...@soe.ucsc.edu

Hello Julius,

This involves configuring your local Galaxy mirror. We suggest you contact them directly for more information:
https://wiki.galaxyproject.org/Support

If you have any further questions, please reply to gen...@soe.ucsc.edu. All messages sent to that address are archived on a publicly-accessible forum. If your question includes sensitive data, you may send it instead to genom...@soe.ucsc.edu.

- - -
Luvina Guruvadoo