Users are getting the following error when trying to add a tool from the tool
shed repository on our local galaxy instance.
An error occurred. See the error logs for more information. (Turn debug on to
display exception reports here)
The galaxy server log shows the message included below. The
Hi Michael,
The previous post you mention is outdated. The main Galaxy tool shed from
which you are pulling has been tracking Galaxy dist for some time now, so you
should only have to update to that.
However, the communication layer between Galaxy and the tool shed is backward
compatible
From: Greg Von Kuster [g...@bx.psu.edu]
Sent: Tuesday, January 29, 2013 9:00 AM
To: Waldron, Michael H
Cc: galaxy-...@bx.psu.edu
Subject: Re: [galaxy-dev] Error trying to add tools from tool shed respository
Hi Michael,
The previous post you mention is outdated. The main Galaxy tool
Computing Center
University of North Carolina at Chapel Hill
From: Greg Von Kuster [g...@bx.psu.edu]
Sent: Tuesday, January 29, 2013 9:00 AM
To: Waldron, Michael H
Cc: galaxy-...@bx.psu.edu
Subject: Re: [galaxy-dev] Error trying to add tools from tool shed respository
Hi Michael,
The previous
, 2013 9:12 AM
To: Waldron, Michael H
Cc: galaxy-...@bx.psu.edu
Subject: Re: [galaxy-dev] Error trying to add tools from tool shed respository
Hi Michael,
Did you restart your Galaxy server after updating from Galaxy central? Your
paster log shows the following:
File
'/nas02/apps/galaxy-prod
-...@bx.psu.edu
Subject: Re: [galaxy-dev] Error trying to add tools from tool shed respository
Hi Michael,
Did you restart your Galaxy server after updating from Galaxy central? Your
paster log shows the following:
File
'/nas02/apps/galaxy-prod/galaxy-dist/lib/galaxy/webapps/galaxy/controllers
...@bx.psu.edu]
Sent: Tuesday, January 29, 2013 9:52 AM
To: Waldron, Michael H
Cc: galaxy-...@bx.psu.edu
Subject: Re: [galaxy-dev] Error trying to add tools from tool shed respository
Hi Michael,
Your paster log still is showing the older code. Any idea how this happens
in your
, January 29, 2013 10:07 AM
To: Waldron, Michael H
Cc: galaxy-...@bx.psu.edu
Subject: Re: [galaxy-dev] Error trying to add tools from tool shed respository
Have you made some changes to your local Galaxy code base that require merging?
On Jan 29, 2013, at 9:57 AM, Waldron, Michael H wrote:
To be honest
-...@bx.psu.edu
Subject: Re: [galaxy-dev] Error trying to add tools from tool shed respository
Have you made some changes to your local Galaxy code base that require
merging?
On Jan 29, 2013, at 9:57 AM, Waldron, Michael H wrote:
To be honest, I barely understand this enough to just follow
Computing Center
University of North Carolina at Chapel Hill
From: Greg Von Kuster [g...@bx.psu.edu]
Sent: Tuesday, January 29, 2013 9:52 AM
To: Waldron, Michael H
Cc: galaxy-...@bx.psu.edu
Subject: Re: [galaxy-dev] Error trying to add tools from tool shed
: [galaxy-dev] Error trying to add tools from tool shed
respository
Hi Michael,
Did you restart your Galaxy server after updating from Galaxy central? Your
paster log shows the following:
File
'/nas02/apps/galaxy-prod/galaxy-dist/lib/galaxy/webapps/galaxy/controllers/admin_toolshed.py
Subject: Re: [galaxy-dev] Error trying to add tools from tool shed respository
Can you send the output of hg heads after having run the pull -u ?
Thanks!
--
James Taylor, Assistant Professor, Biology/CS, Emory University
On Tue, Jan 29, 2013 at 9:57 AM, Waldron, Michael H
mwald
Baker [dannonba...@me.com]
Sent: Tuesday, January 29, 2013 11:15 AM
To: Waldron, Michael H
Cc: James Taylor; Greg Von Kuster; galaxy-...@bx.psu.edu
Subject: Re: [galaxy-dev] Error trying to add tools from tool shed respository
You might try an 'hg merge --preview' to see what it actually wants
Baker [dannonba...@me.com]
Sent: Tuesday, January 29, 2013 11:15 AM
To: Waldron, Michael H
Cc: James Taylor; Greg Von Kuster; galaxy-...@bx.psu.edu
Subject: Re: [galaxy-dev] Error trying to add tools from tool shed respository
You might try an 'hg merge --preview' to see what it actually
at Chapel Hill
From: Dannon Baker [dannonba...@me.com]
Sent: Tuesday, January 29, 2013 11:27 AM
To: Waldron, Michael H
Cc: James Taylor; Greg Von Kuster; galaxy-...@bx.psu.edu Dev
Subject: Re: [galaxy-dev] Error trying to add tools from tool shed respository
Oh
: Re: [galaxy-dev] Error trying to add tools from tool shed
respository
Hi Michael,
Your paster log still is showing the older code. Any idea how this happens
in your environment?
On Jan 29, 2013, at 9:46 AM, Waldron, Michael H wrote:
I had stopped the Galaxy server before running
On 29/01/13 17:33, James Taylor wrote:
Wasn't sure of the order, those are definitely after running the
update. Dannon's advice makes a good point, upgrading to the latest
mercurial should help.
If upgrading Mercurial will involve introducing another detour, you
could potentially check which
to add tools from tool shed respository
As it turns out, it was fairly simple to install a newer hg version (2.4.2).
So now running hg merger --preview and hg heads returns:
$ hg merge --preview
abort: branch 'default' has one head - please merge with an explicit rev
(run 'hg heads' to see all heads
, January 29, 2013 1:28 PM
To: Paul Boddie; James Taylor
Cc: Greg Von Kuster; galaxy-...@bx.psu.edu
Subject: RE: [galaxy-dev] Error trying to add tools from tool shed respository
As it turns out, it was fairly simple to install a newer hg version (2.4.2).
So now running hg merger --preview
From: Dannon Baker [dannonba...@me.com]
Sent: Tuesday, January 29, 2013 1:37 PM
To: Waldron, Michael H
Cc: Paul Boddie; James Taylor; Greg Von Kuster; galaxy-...@bx.psu.edu
Subject: Re: [galaxy-dev] Error trying to add tools from tool shed respository
So that's interesting. My best
...@me.com]
Sent: Tuesday, January 29, 2013 1:37 PM
To: Waldron, Michael H
Cc: Paul Boddie; James Taylor; Greg Von Kuster; galaxy-...@bx.psu.edu
Subject: Re: [galaxy-dev] Error trying to add tools from tool shed respository
So that's interesting. My best guess was that this was caused
, Michael H
Cc: Paul Boddie; James Taylor; Greg Von Kuster; galaxy-...@bx.psu.edu Dev
Subject: Re: [galaxy-dev] Error trying to add tools from tool shed respository
I don't know why I thought we'd already checked this, but --
'hg st' will tell you which files have been modified in your local repository
From: Dannon Baker [dannonba...@me.com]
Sent: Tuesday, January 29, 2013 1:37 PM
To: Waldron, Michael H
Cc: Paul Boddie; James Taylor; Greg Von Kuster; galaxy-...@bx.psu.edu
Subject: Re: [galaxy-dev] Error trying to add tools from tool shed
respository
So
From: Dannon Baker [dannonba...@me.com]
Sent: Tuesday, January 29, 2013 2:04 PM
To: Waldron, Michael H
Cc: Paul Boddie; James Taylor; Greg Von Kuster; galaxy-...@bx.psu.edu Dev
Subject: Re: [galaxy-dev] Error trying to add tools from tool shed respository
Ok
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