Bjorn
We'd be interested in this tool, as well. Any idea how close to functional it
is?
I see it's only on TEST toolshed, and not on production, at this point.
I don't see any related Trello card when searching on star
Regards,
Curtis
Galaxy Admin @ University of Alabama at Birmingham
Iyad,
Thanks for chiming in. We looked at the patch you had posted, but we run on a
cluster galaxy shares with other apps, so the galaxy user does not have sudo
outside of the galaxy head-node.
The upload.py code you posted, therefore does not work for us.
Therefore, we're also looking at a
John,
For us, it's not just a question of deleting the file, but of having permission
to do python's copystat (see stack trace below).
We've tried a variety of permission combinations, including sticky group
permissions, various setfacl's and moving the directory on or off the same
-
From: Kandalaft, Iyad [mailto:iyad.kandal...@agr.gc.ca]
Sent: Monday, June 02, 2014 2:01 PM
To: Curtis Hendrickson (Campus); John Chilton
Cc: galaxy-dev@lists.bx.psu.edu
Subject: RE: [galaxy-dev] Uploading files to galaxy from a folder
Hi Curtis,
I recall coming across the external chown script
Cock [mailto:p.j.a.c...@googlemail.com]
Sent: Thursday, May 01, 2014 1:03 PM
To: Curtis Hendrickson (Campus)
Cc: galaxy-dev PSU list-serv (galaxy-dev@lists.bx.psu.edu)
Subject: Re: [galaxy-dev] Cleanest way to disable job-runs during a long
cluster maintenace window?
Hi Curtis,
This used
John,
I can't speak for Ulf, but a more general solution would be to allow sorting by
a standard unix SORT set keys.
That would allow things like - sort by the sample ID after the 3rd dash, then
by the read direction.
-t - -k1,1n -k2,2r # http://unixhelp.ed.ac.uk/CGI/man-cgi?sort
has help for the Data manager, it may be that you need to
do some config changes to get it going. I am certainly no expert - this is
Dan's and under active development - but is where I would start.
Jen
On 9/20/13 1:25 PM, Curtis Hendrickson (Campus) wrote:
Thanks for the rapid reply! I have some
of your
time.
Thanks,
Curtis
From: Jeremy Goecks [mailto:jeremy.goe...@emory.edu]
Sent: Wednesday, September 25, 2013 8:43 AM
To: Curtis Hendrickson (Campus)
Cc: galaxy-dev@lists.bx.psu.edu; Shantanu Pavgi (Campus)
Subject: Re: [galaxy-dev] cuffdiff wrapper not synchronized with cuffdiff
version
the 0.0.5 version (the 2nd
listed in tool_conf).
There was no version pull down to get the 0.0.6 version.,
Any idea what I've missed?
Regards,
Curtis
From: Jeremy Goecks [mailto:jeremy.goe...@emory.edu]
Sent: Thursday, September 19, 2013 3:17 PM
To: Curtis Hendrickson (Campus)
Cc: galaxy-dev
Dear Galaxy Team
I was upgrading our servers with the 8/12 release, and going over the
DevNoteshttp://wiki.galaxyproject.org/DevNewsBriefs/2013_08_12.
I noted item Pull Requets Merged #5: SAMtools indexes
#188http://wiki.galaxyproject.org/DevNewsBriefs/2013_08_12#Pull_Requests_Merged.
But the
Folks,
First, I wanted to thank you for making the datacache available
(http://wiki.galaxyproject.org/Admin/Data%20Integration;
rsync://datacache.g2.bx.psu.edu). It's a great resource.
However, what is the best way to stay abreast of changes to what's in
datacache, and understand how these
Jeremy
First of all, thanks for all your efforts, and for updating the cuffdiff, etc,
wrappers.
However, it's a little frustrating to us that a non-backward compatible change
in the supported version of the cuffdiff executable was not reflected in a new
version number for the cuffdiff (and
To: Curtis Hendrickson (Campus)
Cc: galaxy-dev@lists.bx.psu.edu
Subject: Re: [galaxy-dev] cuffdiff wrapper not synchronized with cuffdiff
version
I know the general versioning problem is address through the tool-shed
mechanism, but for the remaining core wrappers, can maintainersplease update
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