Hi, Christophe
Just a note: I'm taking a look at this and seeing if I can reproduce the
problem. Thanks for being patient.
Carl
On Tue, Sep 6, 2016 at 11:18 AM, Christophe Caron
wrote:
> Hi
>
> we run a Galaxy instance (16.04) in multi-thread mode ( 8 x web handler
s
> isn't the case.
>
>
>
> On Tue, May 24, 2016 at 4:20 PM, Carl Eberhard <carlfeberh...@gmail.com>
> wrote:
>
>> Ok - if it's not zebra striped and it's word wrapping, then it's somehow
>> not displaying as tabular - you're correct.
>>
>&
, Carl Eberhard <carlfeberh...@gmail.com>
wrote:
> Yeah - I understand what you're trying to do now and you're right. In an
> effort to make the API stateless I think we've introduced a gap in
> functionality for a good, practical use case.
>
> I've been wanting to replace the hi
highlighted and there is not word-wrapping on the file. However the
> file that has the type tabular and displayed as text is word-wrapped with
> no lines highlighted. I suspect its not actually recognized as tabular or
> is being overridden where.
>
>
> On Thu, Nov 12, 2015 at 10:23
There's a way to get the current history data through a non-api url:
/history/current_history_json
...but, I don't believe those are accessible through any of the bio/blend
libraries.
Failing the above, is there some way to get the history ID from the UI?
You can click the information button
https://github.com/galaxyproject/galaxy/pull/1972
Thanks for letting us know about this. Let me know if you spot any problems
with that fix.
On Tue, Mar 22, 2016 at 8:32 AM, Carl Eberhard <carlfeberh...@gmail.com>
wrote:
> Hey, Hans
>
> Looks like a problem with the way we're lo
Hi, Christian and Ryan
Which versions of Galaxy are you using when this happens?
Thanks,
Carl
On Mon, Jan 11, 2016 at 9:03 AM, Ryan G wrote:
> I've seen this as well. I find that restarting galaxy fixes the problem
> but I'd love to know the underlying cause.
>
( dataset.get_size() )
>
>else:
>
>dataset.peek = 'file MDA_zip does not exist'
>
>dataset.blurb = 'file MDA_zip purged from disk'
>
>def display_peek( self, dataset ):
>
>try:
>
>return dataset.peek
>
>
Hi, Bob
There are a number of ways to visualize data in Galaxy, so let's settle on
some terminology first for the three major ways:
* *display applications*: these are definitions of external websites that
can fetch galaxy datasets and display them in their visualization
applications. Examples
I'm stumped:
- I'm not sure how that url ("
http://galaxy.man.poznan.pl/history/view_multipl/api/histories/85b413e771c184a9/contents;)
could have been formed
- Calling that link from a local galaxy results in 'No route for' when
the error is an api authentication 403
Maybe it's
: is there an id that remains common to multiple
outputs produced from one tool?
Thank you,
-Asma
On Wed, Aug 26, 2015 at 10:07 AM, Carl Eberhard carlfeberh...@gmail.com
wrote:
Hi, Asma
Sorry for the confusion. You may want to have a look here:
http://docs.makotemplates.org/en/latest/index.html
alone?
-Asma
On Fri, Aug 21, 2015 at 11:41 AM, Carl Eberhard carlfeberh...@gmail.com
wrote:
As far as I know, it's best to write tool wrappers as if they were meant
to be called outside of Galaxy. In other words, it would not be best to try
and get Galaxy dataset ids within the tool code
history.
this way there will be no ambiguity as to which bams are being accessed
for viz. Is this intermediate way of getting dataset ids possible?
Thank you
-Asma
On Wed, Aug 19, 2015 at 4:27 PM, Carl Eberhard carlfeberh...@gmail.com
wrote:
Hi, Asma
If you're looking through datasets
,
Anne.
--
*From:* Carl Eberhard carlfeberh...@gmail.com
*Sent:* 18 August 2015 18:59
*To:* Anne Claire Fouilloux
*Cc:* galaxy-dev@lists.galaxyproject.org
*Subject:* Re: [galaxy-dev] new visualization tool for composite datatype?
Hi, Anne
Can you be more
Hi, Anne
Can you be more specific about how you'd like to visualize the files? It
sounds like you've already got a tool that will build an html file which is
the classic way to make visualizations with galaxy.
Now you'd like to make it more interactive? Do you already have javascript
or python
Hi, Ata Roudgar
It is indeed a bug. Thank you very much for the excellent and *helpful*
report!
We now have a fix for this on the release_15.05 branch of the github
repository:
https://github.com/galaxyproject/galaxy/commit/13a40b3ef206f8662a49dfd06fbbc05b026f8c64
It should fix the issue but
!
Cheers,
~Lina
On Mon, Jul 13, 2015 at 11:24 AM, Carl Eberhard carlfeberh...@gmail.com
wrote:
Hi, Lina
Apologies for the delay. A few questions, please:
- What version is your Galaxy instance running?
- What URL or operation is the user trying when they get that error?
Is it just
Hi, Mark
This could be done - but not easily. Essentially (if I understand
correctly) you'd want to have a tool that uses a non-conventional control
(the html table and row checkboxes) to allow the user to remove selected
rows.
One of the challenges is: how to create a new (smaller) dataset and
Hi, Jose
Our next cycle includes some updates to the resubmission/hda-serialization
code that's mentioned in your stack trace.
You can try two things:
1) You can wait for us to officially publish our next stable release
(15.05) at the beginning of next month and then update your instance.
2) You
,
Loraine
Le 08/01/2015 16:50, Carl Eberhard a écrit :
Hi, Loraine
It isn't possible currently without modifying the code for your
installation.
If you'd like I can provide a patch file that can be applied which will
allow the visualization button (and the link to phyloviz
In short:
Question: How can I save a static snapshot...?
You can't yet.
Question: If so, can I then ...recreate the pie chart?
No, not yet.
Overall, these are features that we definitely want and we are working
towards them. Questions remain for me, if I understand your original
questions,
Hi, Hans.
Sorry for the confusion on this.
I've got a card to improve that feature here:
https://trello.com/c/xWdgs01z
I may remove it for visualizations as they're too variable in where/how
they display. Thanks for the info.
Carl
On Tue, Dec 2, 2014 at 11:41 AM, Hans-Rudolf Hotz h...@fmi.ch
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