Hi Sebastian
I am also not aware of any such documentation. It is probably impossible
to write it, as each such situation is different.
I don't quite understand what your 'script' is doing, but in your
situation, I recommend the following:
First of all, make sure you have a backup of your
Hello,
I am Thomas, IT engineer at the IGFL in France (http://igfl.ens-lyon.fr/).
We are running our own Galaxy instance in front of an OGE cluster.
Users quota never decrease when they delete items in their history. I
have run the scripts in the cleanup_datasets directory but without
Hi Thomas
Just double checking: what value are you using for the 'days' option?
If you use the default (which is 60 days if I remember correctly), only
data sets which have been 'deleted' more than 60 days ago will actually
be removed.
Regards, Hans-Rudolf
On 01/14/2014 09:49 AM, Thomas
Hi,
Yes ! That was the problem !
I missed to put the -d value...
It works like a charm now. :)
Thanks a lot.
Regards, Thomas.
On 14/01/2014 10:00, Hans-Rudolf Hotz wrote:
Hi Thomas
Just double checking: what value are you using for the 'days' option?
If you use the default (which is 60
When I use API to create a user, I get an error! And this time I use the galaxy
instance from galaxy-central.
The command is:
#curl -d '{username:test,password:test,email:1...@123.com}'
http://myip:8080/api/users?key=my_key
I get some information:
And the web server give me some error
Hi Hans-Rudolph,
Thanks for that. I think you are right that there is no peace of code
for that, but it could have been the case (no intend to trigger
something like 'rtm' ;) ).
My script basically creates the NFS mount points, mounts the network
target directories, shuts down Galaxy if
Hi all,
Although users were able to create accounts till recently, now the
following error pops up whenever someone is trying to register as a new
user after filling the fields and clicking submit.
Select the user's type and information
Is anyone familiar with this error?
Bests,
Nikos
I found the error in the logs:
Error - type 'exceptions.AttributeError': 'NoneType' object has no
attribute 'id'
URL: http://galaxy.bric.dk/user/manage_user_info?cntrller=user
File
'/steno-internal/projects/galaxy/galaxy-dist/lib/galaxy/web/framework/middleware/error.py',
line 149 in __call__
Kyle;
I'm also excited about Docker for easing installation issues and fully
capturing run environments. I haven't yet done anything specifically for
Galaxy tools but put together a functional docker installation of
bcbio-nextgen as a step towards integration:
On Tue, Jan 14, 2014 at 2:17 PM, Pasquale Notarangelo
pasquale.notarang...@ba.infn.it wrote:
Hi all,
we are two new galaxy users.
We have developed 2 new tools and we would connect them into a new workflow.
We are able to import both tools and to link them into a workflow but we
aren't able
Hi all,
we are two new galaxy users.
We have developed 2 new tools and we would connect them into a new
workflow.
We are able to import both tools and to link them into a workflow but we
aren't able to pass the output of the first tool as the input of the
second tool.
The first tool
Hi,
I've tried reinstalling from scratch in case there was a problem when I updated
the last time. I am still having trouble logging in. The broken pipe error
message has nothing to do with the failed logins.
The logins are successful as far as authentication goes ( I get no error
message,
Hi,
I have tested user creation on local instance running galaxy-central and it
is running fine for me. Please se attached request and response
(printscreen from postman chrome extension):
https://www.dropbox.com/s/g7iiluq1tqc426p/Screenshot%202014-01-14%2014.22.45.png
Martin, Galaxy Team
On
Hi Nikos,
did you update your galaxy version recently? Did you use galaxy form
definitions at any time?
Martin
On Tue, Jan 14, 2014 at 8:30 AM, Nikos Sidiropoulos
nikos.sid...@gmail.comwrote:
I found the error in the logs:
Error - type 'exceptions.AttributeError': 'NoneType' object has no
Hello galaxy team,
First and foremost, I would like to thank you for your assistance with my
galaxy installation with apache proxy.
It works very well.
Secondly, I would like your help with creating users, groups, roles and
permissions that would allow me to:
1. differentiate a student
Hi Martin,
I have just found the workaround.
Apparently there was a User information form in the Definition forms. I
don't remember creating it but it was there anyway.
After deleting it's able to register as a new user.
Thanks for the help!
Bests,
Nikos
2014/1/14 Martin Čech
Is it possible to permanently change the owner of a Tool in the Tool Shed?
Really want to transfer responsibility of my tools to others.
Thanks!
___
Please keep all replies on the list by using reply all
in your mail client. To manage your
Hello Philip,The owner cannot be changed because it is part of the name-spaced repository identifier ( i.e., the clone url includes the owner, tools have generated guids tha tinclude the owner, etc.). However, you can provide write authorization on the repository to others so that they can make
Thanks for the quick reply. Makes sense that little hard to change because
name-spaced repository identifier isssue.
I up voted the trello card and waiting for the change.
Thanks!
On Tue, Jan 14, 2014 at 4:00 PM, Greg Von Kuster g...@bx.psu.edu wrote:
Hello Philip,
The owner cannot be
Hi All,
I'm having an error at this:
*Dataset 18: Wig/BedGraph-to-bigWig on data 12*
Tool execution generated the following error message:
grep: writing output: Broken pipe
grep: writing output: Broken pipe
grep: writing output: Broken pipe
grep: writing output: Broken pipe
..
put: Broken
Solved problem, I had not read this tutorial that explains how to edit the
layout.
https://wiki.galaxyproject.org/GalaxyToolPanel#XML_configuration_files_used_to_populate_your_Galaxy_tool_panel
2014/1/12 Cristian Alejandro Rojas alejandro.0...@gmail.com
Hello All,
I'm trying to personalize
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