The Encode db datasource was not loaded into running galaxy. It is
corrected now and running at
Use this URL for testing and let us know.
Department of Biochemistry and Molecular Biology
Center for Comparative Genomics and Bioinformatics
505 Wartik Building
University Park, PA 16802
814 863-6699 FAX
thanks for your help. the message below shows another error we're
getting. Normally, we'd take more time to investigate the problem
before asking you, but our manuscript is out for review right now
and we need resolution of this ASAP. If you think it can only be
handled on our end, let me know, but if you have suggestions for
the fix- we would greatly appreciate hearing them.
From: Umayam, Lowell (NIH/NHGRI) [C]
Sent: Wed 6/28/2006 5:02 PM
To: Elnitski, Laura (NIH/NHGRI) [E]; prachi(a)stanford.edu
Cc: Wolfsberg, Tyra (NIH/NHGRI) [E]; Baxevanis, Andy (NIH/NHGRI) [E]
Subject: Re: Fwd: Fw: [Galaxy-user] FW: Is Galaxy down?
Switched the URL so it's pointing to the correct public port. So now
it's getting access to the galaxy server but now another error has
developed. It looks like they must have changed the script on their
and that it's now taking different arguments. This error is out of my
scope since I really don't have any expertise with the scripts on
Galaxy. I think Prachi should look into this.
Module paste.exceptions.errormiddleware:*138* in |__call__|
Module paste.lint:*65* in |lint_app|
Module flup.middleware.session:*743* in |__call__|
Module paste.recursive:*54* in |__call__|
Module paste.httpexceptions:*619* in |__call__|
Module paste.wsgilib:*112* in |catch_errors_app|
Module galaxy.web.framework:*104* in |__call__|
kwargs*.*update*(* map *)*
body *=* method*(* trans*,* ****kwargs *)*
# Now figure out what we got back and try to get it to the browser in
# a smart way
trans*,* ****kwargs *)*|
*exceptions.TypeError: default() takes at least 3 non-keyword
Tyra Wolfsberg wrote:
>> Subject: Fw: [Galaxy-user] FW: Is Galaxy down?
>> Date: Wed, 28 Jun 2006 16:04:56 -0400
>> Thread-Topic: [Galaxy-user] FW: Is Galaxy down?
>> Thread-Index: Acaau6b4nybF168GSgeMfrMVI4hHmAAMnsjC
>> From: "Elnitski, Laura \(NIH/NHGRI\) [E]"
>> To: "Wolfsberg, Tyra \(NIH/NHGRI\) [E]" <tyra(a)nhgri.nih.gov>
>> Hi can you forward this to Lowell? I'm in italy :-)
>> Sent from my BlackBerry Wireless Device
>> ----- Original Message -----
>> From: Nate Coraor <nate(a)bx.psu.edu>
>> To: Elnitski, Laura (NIH/NHGRI) [E]
>> Cc: galaxy-user(a)bx.psu.edu <galaxy-user(a)bx.psu.edu>
>> Sent: Wed Jun 28 10:04:35 2006
>> Subject: Re: [Galaxy-user] FW: Is Galaxy down?
>> On Jun 28, 2006, at 7:49 AM, Elnitski, Laura ((NIH/NHGRI)) [E]
>>> Can you give us any guidance on our ENCODEdb connection problem?
>> It's on port 8885, although the "public" interface is now just:
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