Hi JanakiRam,
galaxy-dist is the stable version of Galaxy and galaxy-central is the
development version. But you can also track galaxy-central and the
stable branch as I do. Galaxy-central [stable] should be the same as
galaxy-dist in theory. In practise galaxy-central [stable] get more
Hi Alex, all
FYI - I've added the card to https://trello.com/c/ro8knsaa some time ago. Can
you please vote for it?
Thanks,
Pieter.
From: Bossers, Alex
Sent: dinsdag 25 maart 2014 16:52
To: Lukasse, Pieter
Cc: galaxy-dev@lists.bx.psu.edu
Subject: RE: [galaxy-dev] Strange issue with datatypes
Hello Björn,
I've enhanced the error message displayed in 12959:64d677b1e16a, which is
available in the next-stable branch, so it will be included in the upcoming
release. This message is tricky, because it is only displayed when visiting
the Tool Shed from Galaxy to install a repository that
For those interested,
The main Galaxy Tool Shed is now running the next-stable branch in preparation
for the upcoming Galaxy release currently scheduled for about 2 weeks from now.
We'll continue to update the Tool Shed as new changeset are pushed to the
next-stable branch. We'll alert you
Dear there,
I tried to download workflow and import it into another my local Galaxy
instance. But, when I downloaded and exported it from main Galaxy by Download
to File, it showed as below.
Not Found
The resource could not be found.
No route for
Hi Xiaofei,
You should be able to install 1.1.3 by selecting revision 3 of sam_to_bam
from the Preview and install page (Admin - Search and browse tool sheds
- Galaxy main tool shed - sam_to_bam - Preview and install), and then
clicking Install to Galaxy.
[image: Inline image 1]
You can tell
Hello Xiaofei,
it seems you don't have username set in usegalaxy.org and thus the links
generated are wrong. Can you please set one (user/preferences/manage
information) and try again?
thanks
Martin
Galaxy team
On Fri, Apr 4, 2014 at 12:07 PM, Wang, Xiaofei xfw...@ku.edu wrote:
Dear there,
Hi All,
I posted this earlier in the week, but haven't heard anything. I
changed the title of the email to hopefully attract more attention.
We are getting errors when creating a workflow. Some of the tools,
when selected, say only error loading field data. As such, we cannot
use them in
Yes, I really appreciate for your help!
From: emulato...@gmail.com [emulato...@gmail.com] on behalf of Martin Čech
[mar...@bx.psu.edu]
Sent: Friday, April 04, 2014 11:28 AM
To: Wang, Xiaofei
Cc: galaxy-dev@lists.bx.psu.edu
Subject: Re: [galaxy-dev] Download
Yes, it is figured out when I downloaded the version of 1.1.2. I thought is no
longer available.
Thank you so much!
Best,
Xiaofei
From: Nate Coraor [n...@bx.psu.edu]
Sent: Friday, April 04, 2014 11:20 AM
To: Wang, Xiaofei
Cc: galaxy-dev@lists.bx.psu.edu
Dear there,
I got this error when I run CloudMap EMS Variant Density Mapping workflow for
Depth of Coverage on the local Galaxy instance on Mac. In fact, it works fine
for Depth of Coverage when I run another workflow (Unmapped Mutant workflow)
locally.
I really appreciate you guys for
Hi Xiaofei,
SQLite is not suitable for complex tasks like running workflows. Please
switch to PostgreSQL:
https://wiki.galaxyproject.org/Admin/Config/Performance/ProductionServer#Switching_to_a_database_server
--nate
On Fri, Apr 4, 2014 at 1:35 PM, Wang, Xiaofei xfw...@ku.edu wrote:
Dear
Hi devs,
I deleted a tool called upload_local_file and tried to restart galaxy server
but I keep getting the following error. Any idea how to solve this?
File
/srv/www/galaxy/source/galaxy-dist/lib/galaxy/webapps/galaxy/buildapp.py,
line 39, in app_factory
app = UniverseApplication(
Hi Ravi,
I believe admin_cleanup_datasets.py only works on database times. The rest
of your assumptions are likely correct, although without looking at more
details of the database I can't confirm.
--nate
On Fri, Mar 28, 2014 at 5:12 PM, Sanka, Ravi rsa...@jcvi.org wrote:
Hi Nate,
I
Hi Tim,
I agree the single tool_data_table_conf.xml is a problem and it would be
nice to implement functionality for multiple. I've added a Trello card for
it here: https://trello.com/c/rm2p8PpZ
As to the location file collections, I can foresee a few problems, e.g.
conflicting definitions, bad
Anyone please?? I cannot even start the galaxy server. Makes me wonder if
something in the database got messed up.
On Apr 4, 2014, at 11:16 AM, Ravi Alla ravi.a...@berkeley.edu wrote:
Hi devs,
I deleted a tool called upload_local_file and tried to restart galaxy server
but I keep getting the
Never mind,
I figured it out. I deleted all instances of the job and the temp dataset.
Thanks
R
On Apr 4, 2014, at 2:29 PM, Ravi Alla ravi.a...@berkeley.edu wrote:
Anyone please?? I cannot even start the galaxy server. Makes me wonder if
something in the database got messed up.
On Apr 4,
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