I would like to auto create users on my local Galaxy instance.
I saw that in the create user on the API, I should enable use_remote_user
(which as I understand means that I have to use Apache or nginx).
Is there another way besides using Apache to create users automatically?
I am using my own Galaxy instance and I had a problem with page and
For example, when I want to edit attributes of a page, I've got this
error traceback :
|NameError: global name 'VALID_SLUG_RE' is not defined|
and when I want to remove or share a page or a
Its hashed (sha1) and you can not reverse the hash. Storing passwords in a
reversible manner is bad practice.
You could maybe authenticate your users from the other program with the same
method against the
I've recently updated to the december 20th revision of galaxy and still have a
problem with a few workflows.
You can find the backtraces below.
based on these I'm starting to look in
/mnt/ngswork/galaxy/galaxy-dist/lib/galaxy/workflow/modules.py - but any hints
would be appreciated.
The tool you are looking for is:
galaxy-dist / tools / fastq / fastq_combiner.py
galaxy-dist / tools / fastq / fastq_combiner.xml
Hopefully this helps. Next time, please be sure to send questions
directly to the galaxy-...@bx.psu.edu email address. Your question went
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Ted, have you considered if you can do what you need with the 'allowed'
method of GridOperation? It let's you define a callable condition that
determines if that operation is allowed on a given item. It does not have
access to trans but it would be reasonable to add that.
Repost to Galaxy Dev
On 1/7/13 5:14 AM, Makis Ladoukakis wrote:
Dear Galaxy users,
I have a tool which among other files it produces certain images in .png
format. Does anyone know if there is a way to make them appear inside
the display data interface?
Thank you in advance,
I am pretty confident there is no way to do this via the API
currently, though I imagine it wouldn't be terribly complicated to add
and the community would appreciate the contribution. If API-based
access isn't a strong requirement and you have direct access to the
Galaxy server here is a
Thanks for reporting this issue. I've committed what I hope is a fix for your
issue in changeset 8527:eb4dac39eed5 in galaxy-central. Once you are able to
apply these changes, would you mind letting us know if this resolves your
Thanks for using Galaxy,
The pull request for this patch is still on the queue. Is anything
happening with this?
On Tue, Nov 27, 2012 at 8:56 AM, John Chilton chil...@msi.umn.edu wrote:
I went down something of a rabbit hole last night, I thought that
uploading files through the API using multipart/form-data
I'm trying to figure out if I can do this all through the API (so I can
skip setting up FTP servers and sharing database servers).
I can scan one system, and initiate downloads on the destination system
(using upload1). So as far as moving files from one machine to another, it
should be fine. I
Hi Greg and James,
This has become a plumbing project. What starts off as fixing a leaky faucet
ends being a $200 bill replacing the entire sink ;-). But I don't see anyway
Yes, there is a lot of power in the allowed method since it uses a function or
a lambda. There are two
I am trying to configure Galaxy to submit jobs to a remote cluster
(specifically, an XSEDE resource to which I don't have administrative access).
I'm familiar with LWR and have read another response about configuring the
Galaxy host as a PBS submit host. What is the best approach to
Editing the DB and manually fixing all the errors in the UI doesn't seem
like a long term solution.
Is there a way to do this through the API? If not, where should I start
working to add it in?
On Wed, Jan 2, 2013 at 7:41 AM, Nate Coraor n...@bx.psu.edu wrote:
On Dec 31, 2012, at 8:18
After much wrestling with hg graft and gnashing of teeth I failed to cherry
pick that changeset and just added the code manually in
However, I'm not observing any change as a result. I cannot clone, view, export
or edit this workflow (or the other problem
Hi, I hope I'm writing to the right area (if not, please point me in the
right direction and I'll go on my way).
I have a set of tools that our team have built and been using for
functional genomics analysis, which I would like to integrate into Galaxy.
My first concern is with the tests.
These bugs have been fixed in our development repository (galaxy-central) and
will be available in the next distribution, which should occur in the coming
On Jan 7, 2013, at 6:23 AM, MONJEAUD wrote:
I am using my own Galaxy instance and I had a problem with
galaxy.web.framework WARNING 2013-01-07 22:06:30,044 User logged in as '(null)'
externally, but has a cookie as 'langho...@neb.commailto:langho...@neb.com'
10.254.254.86 - - [07/Jan/2013:22:06:30 -0400] GET
/api/histories/4c8cd68e0b9ed4a7 HTTP/1.1 403 -
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