Hello all,
Trying to fix Trackster on our Galaxy, I noticed that my browser
(Firefox) catches a lot of warnings, also on properties of CSS that I
thought would be especially for Firefox.
Can this cause lagging while using Galaxy? (some of our users experience
slow browsing on our Galaxy).
T
Hi,
I had cleared my cache, and switched on error reporting ... Flash of
insight: I had this issue before. :-s
I digged this thread up:
http://dev.list.galaxyproject.org/Trackster-error-after-upgrade-td4656986.html
Repacking the scripts fixed it for me:
~/galaxy-dist/static/scripts/python/
This is the most recent thread on uploading files via the API; this approach
uses a URL for uploading a dataset to the history:
http://dev.list.galaxyproject.org/Uploading-to-history-via-JavaScript-td4657068.html
In general, using the Galaxy Web search and/or mailing list search to see if
your
> I have only a faint clue why the packing did not work: I had manually
> corrected some scripts (in static/scripts/viz/trackster), after merging
> failed during updating.
I'm curious about what changes/corrections you made to Galaxy's scripts. Would
you be willing to share them?
> Since those
Hey Neil,
Just last week pull request 94 was accepted into galaxy-central that
direct upload of files to history (without needing a URL). The python
bioblend (https://github.com/afgane/bioblend) API client does not yet
have it but it would be relatively easy to add, you will want to look
at uplo
Hi Jeremy,
I did not do any change/corrections! That's why I was puzzled that the
hg merging did not work... The files had just some '< local'
lines that I needed to remove... Sorry that I could not be more helpful
on this occasion.
Thanks,
Joachim
Joachim Jacob
Rijvisschestra
Hi all,
Trying to construct a small scatterplot of a tabular file with two
columns, only integers between 1 and 9.
The error that the scatter plot shows after clicking 'Draw' in the 'Data
controls' is:
ERROR fetching data:
error
Internal Server Error
Any hint of what can be wrong?
Cheers
Hi all,
I cannot post to Trello today. Actually, this problem exists from last
friday already.
My enhancement request (which was not yet posted on Trello - at least
not in a way I could find it...):
"""
Some files I upload have a first line containing the column names.
Sometimes I need to
Thanks for pointing this out. I 'enhanced' the trello reporting last friday to
optionally @mention submitters as a method for both claiming a submission and
easier notifications, but it looks like something has gone awry and I'm looking
into it now.
-Dannon
On Jan 14, 2013, at 9:58 AM, Joachi
Hi.
Thanks for your help!
I have a few questions:
"Is it possible to display different content of central area (welcome.html)
according to user - registered or guest?
If guest - page with offer to register, if registered user - page with
another info.
And how I can get the email of this user?"
Be
On Jan 11, 2013, at 9:32 AM, Liisa Koski wrote:
> Hello,
> Can you please post the link to this patch? I do not see it in the mail
> thread and I too have noticed some issues with the DRMAA job running since
> updating to the Oct. 23rd distribution. I don't know if it is related yet but
> I'd
Hello all,
We are wondering if it is possible to activate anonymous use of the workflows
and the visualization (trackster) features of Galaxy, somehow?
This is a strict requirement for the acceptance of our new paper in a specific
journal.
Hack solutions are also welcome!
Thanks,
Sveinung
--
Hi Anatoly,
attached a patch file against to the latest central revision
(8590:937966b77a10) to add a welcome.mako file which differentiates between
a registered user and anonymous account.
Do try this first in a development/test version as this patch isn't
complete, there are more references to
I've received no replies to this post though clearly I must be doing something
wrong since the tool would be useless if this were its normal behavior and
judging from other posts people are using it. Please help.
Thanks
Mark
From: galaxy-dev-boun...@lists.bx.psu.edu
[mailto:galaxy-dev-boun..
I think this bug has been fixed in the most recent galaxy distribution; please
update and let us know if it's still an issue.
Thanks,
J.
On Jan 14, 2013, at 9:49 AM, Joachim Jacob wrote:
> Hi all,
>
> Trying to construct a small scatterplot of a tabular file with two columns,
> only integers
Can you reproduce this behavior on our public server? If so, it'll be much
easier for us to take a look at the issue.
If you can't reproduce on our public server, then providing as many details as
possible about the problem will provide the best chance for the list to help
you. For instance:
Hello all,
This is just a reminder that the next GalaxyAdmins web meetup is this
Wednesday at 10am central US time. See
http://wiki.galaxyproject.org/Community/GalaxyAdmins/Meetups/2013_01_16 for
details.
Thanks,
Dave C.
On Mon, Jan 7, 2013 at 10:59 AM, IIHG Galaxy Administrator <
iihg-galaxy-
Shared/published visualizations should be able to be used completely
anonymously, so that shouldn't be a problem. (Let us know if you find
otherwise.)
Workflows, however, are tied to user accounts, so using them requires a login
for now. Viewing workflows anonymously should be possible, however
No. When I save the file I wish to manipulate from my local galaxy and upload
it to the public galaxy and run "Compute" it works (i.e. a tab-delimited file
is produced with the computed field occurring last, the job listing in the
history is green, and the result is available for input into oth
If you click on the bug icon for the failed dataset (click on the dataset name
to open the dataset and find the icon), what is the error listed? If you click
on the information icon, is there any additional output in the standard output
or error?
J.
On Jan 14, 2013, at 2:50 PM, wrote:
> No.
Ah, yes. I forgot about the bug icon. Sorry, still pretty new to galaxy.
Here is the error message:
/home/rosema1/Projects/galaxy-dist/lib/galaxy/__init__.py:79: UserWarning:
Module markupsafe was already imported from
/usr/lib/python2.7/dist-packages/markupsafe/__init__.pyc, but
/home/rosem
The problem is that you have an egg conflict with an existing Python
installation. The recommended way to fix this is to set up a virtual
environment as discussed here:
http://wiki.galaxyproject.org/Admin/Config/Performance/ProductionServer?action=show&redirect=Admin%2FConfig%2FPerformance%2FPro
Yes, that did it.
Thanks a lot!
Mark
From: Jeremy Goecks [mailto:jeremy.goe...@emory.edu]
Sent: Monday, January 14, 2013 3:28 PM
To: Rose Mark USRE
Cc: galaxy-dev@lists.bx.psu.edu
Subject: Re: [galaxy-dev] text manipulation Compute tool error
The problem is that you have an egg conflict with an
> Trying to fix Trackster on our Galaxy, I noticed that my browser (Firefox)
> catches a lot of warnings, also on properties of CSS that I thought would be
> especially for Firefox.
> Can this cause lagging while using Galaxy? (some of our users experience slow
> browsing on our Galaxy).
No, th
Hello all,
We are wondering if it is possible to activate anonymous use of the workflows
and the visualization (trackster) features of Galaxy, somehow?
This is a strict requirement for the acceptance of our new paper in a specific
journal.
Hack solutions are also welcome!
Thanks,
Sveinung Gun
Hello all,
We are wondering if it is possible to activate anonymous use of the workflows
and the visualization (trackster) features of Galaxy, somehow?
This is a strict requirement for the acceptance of our new paper in a specific
journal.
Hack solutions are also welcome!
Thanks,
Sveinung Gun
Hi,I just updated to the latest galaxy-dist, but now my history pane is not showing the options and no reload etc.Attached a picture, not sure it will come through...Any ideas? Now my galaxy is totally broken...I was hoping not to have to worry about it as much by switching to the galaxy-dist,from
Never mind...I was pointing to some older galaxy-central scripts in my proxy setup...It's all good now :)ThonOn Jan 14, 2013, at 08:03 PM, Anthonius deBoer wrote:Hi,I just updated to the latest galaxy-dist, but now my history pane is not showing the options and no reload etc.Attached a picture, no
On Jan 9, 2013, at 12:41 PM, Nate Coraor wrote:
On Jan 8, 2013, at 1:27 PM, Shantanu Pavgi (Campus) wrote:
I am trying to understand how FTP and data library upload options are working
in Galaxy. When a non-binary file is uploaded through FTP option, it goes
through three move operations:
1.
ProgrammingError: (ProgrammingError) You must not use 8-bit
bytestrings unless you use a text_factory that can interpret 8-bit
bytestrings (like text_factory = str). It is highly recommended that
you instead just switch your application to Unicode strings. u'UPDATE
job SET update_time=?, state=?, s
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