Hi,
anyone tried to install an aspera server for a galaxy cloud instance? The goal
would be to feed some local data faster to the instance.
best,
joe
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The Galaxy User list should be used for the discussion of
Galaxy analysis and other
Thanks!
I'll read up on the url and we should discuss moving forward.
best,
joe
From: Ravi Madduri [madd...@mcs.anl.gov]
Sent: Tuesday, June 21, 2011 10:08 PM
To: Enis Afgan
Cc: Joseph Hargitai; galaxy-user@lists.bx.psu.edu
Subject: Re: [galaxy-user] a
Hi,
setting the admin user in
/mnt/galaxyTools/galaxy-central/universe_wsgi.ini
did work after a simple restart of the galaxy service as user galaxy -
./runs.sh
However, when I restarted the cloud instance (rebooted from Amazon console) the
setting reverted to original.
Is there perhaps an
d bucket file causing an issue? How do I get a new one or fix this?
I did notice that the first uploaded try omitted the .cloud suffix, but i
uploaded it again with the correct suffix.
best,
joe
From: Enis Afgan [eaf...@emory.edu]
Sent: Tuesd
galaxy itself, but I do not think that is what you
are referring to.
joe
From: Enis Afgan [eaf...@emory.edu]
Sent: Tuesday, June 28, 2011 3:30 PM
To: Joseph Hargitai
Cc: galaxy-user@lists.bx.psu.edu
Subject: Re: [galaxy-user] cloud instance drops settings on reboot
to rely on AIM, but once you start updating your configuration you move
away from the gold-standard with every step.
joe
From: Enis Afgan [eaf...@emory.edu]
Sent: Tuesday, June 28, 2011 3:57 PM
To: Joseph Hargitai
Cc: galaxy-user@lists.bx.psu.edu
Subject: Re
throws this:
{"updated": false}
From: Enis Afgan [eaf...@emory.edu]
Sent: Tuesday, June 28, 2011 6:02 PM
To: Oliver Hofmann; Joseph Hargitai
Cc: galaxy-user
Subject: Re: [galaxy-user] cloud instance drops settings on reboot
Well, now that I looked into
where do i find the 'cloudman' bucket?
j
From: Enis Afgan [eaf...@emory.edu]
Sent: Tuesday, June 28, 2011 6:48 PM
To: Joseph Hargitai
Cc: Oliver Hofmann; galaxy-user
Subject: Re: [galaxy-user] cloud instance drops settings on reboot
I apologize for mak
same - looks nice and very useful.
best,
joe
From: Oliver Hofmann [ohofman...@gmail.com] on behalf of Oliver Hofmann
[ohofm...@hsph.harvard.edu]
Sent: Tuesday, June 28, 2011 7:29 PM
To: Enis Afgan
Cc: Joseph Hargitai; galaxy-user
Subject: Re: [galaxy
Hi,
just like universe..ini.cloud in bucket, is the assumption to edit this file
in the bucket? (
How about the tool directory edits on the regular mount? Will they be wiped on
a reboot?
Again, do we have a doc somewhere about the cloud version's persistence issues
as far as edits and data?
Hi,
is there a best practices, to replace general SGE requests with requests
specific to applications -
did anyone actually build such request options to be part of the selectable
items in the apps menus?
best,
joe
___
The Galaxy User
Hi,
the cloud version is using Linux ip-10-68-42-15 2.6.32-308-ec2 #16-Ubuntu SMP
Thu Sep 16 15:25:39 UTC 2010 x86_64 GNU/Linux
what is the latest Ubuntu version we can use for a full unified install using
the tool and data scripts to populate both tools and indexes?
best,
joseph
Enis,
since we are bringing up VMs locally we can try both -
best,
joe
From: Enis Afgan [eaf...@emory.edu]
Sent: Thursday, July 21, 2011 2:05 PM
To: Joseph Hargitai
Cc: galaxy-user@lists.bx.psu.edu
Subject: Re: [galaxy-user] latest ubuntu version for full
Enis,
a few things we came across:
a, local install
R - not the correct download url,
rpy - will this be fixed?
permissions:
the script seems to use sudo and galaxy interchangeably, which creates an issue
with permissions writing to folders.
Is there a way to install as galaxy user only?
If
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Hi,
is there by any chance a per application breakdown of the test-data structure?
best,
joe
___
The Galaxy User list should be used for the discussion of
Galaxy analysis an
Hi,
we are running distinct instances on 80 and 8080 -
when you use the 8080 instance - the url is built for /galaxy not :8080/galaxy
http://genome.ucsc.edu/cgi-bin/hgTables?GALAXY_URL=http%3A//genome.einstein.yu.edu/galaxy/tool_runner&tool_id=ucs..
thus you cannot pass the data back to t
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