Hi Hans-Rudolf,
Thank you very much for you help.Actually I want some more information about
how to configure 'smtp_server' in "universe_wsgi.ini".Could you show me some
samples to have a look please?
Regards, shenwiyn
From: Hans-Rudolf Hotz
Date: 2013-07-31 23:40
To: shenwiyn
CC: galaxy-de
If I share a history, it produces a url with the datasets. This is good. But if
you click on the eyeball in this view, it shows the dataset in its raw form.
Its as if the code path does not go through the sophisticated datatype logic.
Is this deliberate or an oversight?
Thanks,
Ted
___
Hi,
I have a 80 core/1TB RAM Dell server.
In order improve Galaxy performance I modified the universe_wsgi.ini
file so as to improve the Scaling and Load Balancing
as follows:
# Use a threadpool for the web server instead of creating a thread for each
# request.
use_threadpool = True
# Number of
Dave,
See below
On Mon, Aug 5, 2013 at 1:55 PM, Dave Bouvier wrote:
> Rodolfo,
>
> Please keep the thread on the mailing list by using the "Reply all" option.
Apologies
>
> You should now be able to go to the manage repository page, select the tool
> dependency, then select 'Manage tool de
Strangely, I had never noticed this before. On some tools, there is a link at
the top of the tool page that attempts to connect to
http://slyfox.bx.psu.edu:8080/, which it can't. This URL is set via the qa_url
directive in the universe_wsgi.ini file. What is this URL, and what should it
be?
Rodolfo,
Please keep the thread on the mailing list by using the "Reply all" option.
You should now be able to go to the manage repository page, select the
tool dependency, then select 'Manage tool dependencies' from the
repository actions dropdown and reinstall the blast+ tool dependency.
Hi Dannon,
Thanks a lot. I'll do as you suggest.
Cheers,
Boaz
Boaz Shaanan, Ph.D.
Dept. of Life Sciences
Ben-Gurion University of the Negev
Beer-Sheva 84105
Trying out a local instance of Galaxy. Small files can be uploaded with
"browse.." but this works only for files under 2Gb. Is there a folder in a
local copy of galaxy-dist where I can copy a large file and have it show up in
the Get Data/Upload File/Files uploaded via FTP window so that I can p
Greg,
Please see my previous responses to Dave
I believe there are issues with the Tool Shed itself
Thanks
--R
On Mon, Aug 5, 2013 at 1:42 PM, Greg Von Kuster wrote:
> The statement "there are still issues with the Tool Shed itself" is not
> confirmed, correct? I believe we're still waiting o
The statement "there are still issues with the Tool Shed itself" is not
confirmed, correct? I believe we're still waiting on the response to Dave's
initial response below. Or did I miss it???
On Thu, Aug 1, 2013 at 9:44 AM, Dave Bouvier wrote:
> Rodolfo,
>
> In order to simplify tracking dow
On Mon, Aug 5, 2013 at 6:50 PM, Rodolfo Aramayo wrote:
> Dear Peter,
>
> APOLOGIES for the delayed response
>
> Please see below for details..
>
OK, so there are still issues with the Tool Shed itself,
but the BLAST issue seems to have gone away when
using a newer version (compiled). I'm work
Dave,
Also, when I click on:
"Get repository update"
I get the following error:
##
URL:
http://galaxy.tamu.edu/admin_toolshed/check_for_updates?id=ff08d6222f8e14990ad98c3bdd778cf31920e6108c41c80f
File
'/usr/local/galaxy/galaxy-dist/lib/ga
Dear Peter,
APOLOGIES for the delayed response
Please see below for details..
On Thu, Aug 1, 2013 at 8:51 AM, Peter Cock wrote:
> On Thu, Aug 1, 2013 at 2:47 PM, Rodolfo Aramayo wrote:
>> On Thu, Aug 1, 2013 at 8:40 AM, Peter Cock wrote:
>
> I've seen that kind of error from NCBI
Hello all,
The Galaxy Project is asking for your help on how we should focus our
training efforts for the coming year. If you are interested in Galaxy
Training, please take a few minutes to let us know what you would like to
see offered, and where you would like training to be held:
http://bit.
Hi Boaz,
You should be able to edit universe_wsgi.ini (line ~30) to specify any port
you'd like -- so simply pick something other than 8080, save the file, and
retry. Remember to remove the hash (#) at the beginning of the line to
have it take effect.
-Dannon
On Mon, Aug 5, 2013 at 12:42 PM, B
Nice catch. Maybe an old version of bootstrap's less. I'll see what I can
do about that.
Thanks for the help.
On Mon, Aug 5, 2013 at 12:17 PM, Seth Sims wrote:
> Dear Carl,
>
>lessc 1.3.3 successfully compiles the scripts. So you've got a bit of a
> goldielocks situation going on. Looks li
Dear Carl,
lessc 1.3.3 successfully compiles the scripts. So you've got a bit of a
goldielocks situation going on. Looks like only 1.3.* versions of less are
useable with galaxy as it stands.
- Seth
On Mon, Aug 5, 2013 at 12:09 PM, Seth Sims wrote:
> Dear Carl,
>
>OK, I have been casti
Dear Carl,
OK, I have been casting about to find out what the problem was; invoking
lessc on the ini was just something I tried since the error from the
makefile is completely opaque. I already had PIL and pyparsing installed,
just checked again to make sure...
After fighting a bit with np
The ini file is not a .less file so it will error if you call lessc
directly with it.
It may be that you're lacking some (not obvious) dependencies. Do you have
pyparsing and PIL installed and available in your terminal (pip install
will work with both)?
You can also use npm to update/install you
Hello,
I have submitted some simple jobs to Galaxy Main last Friday and they are
still waiting to be run. Are there any issues with the cluster?
Thank you,
Phil
Philipp Kapranov, PhD
___
Please keep all replies on the list by using "reply
Here are a couple of questions on rsync:
1. the amount of files for hg19 and mm9 is extremely different (over 600 vs. 88
Gb) - why is that so? They are both mammalian genomes ... are there redundant
files in hg19, is mm9 incomplete...?
2. if I list the directories for hg19 and mm9, there seems t
Dear Carl,
You are using a more recent version of lessc then I am so it is
probably just a versioning error. Ubuntu Precise Pangolin's repositories
are still at lessc-1.2.1. So apparently I need to manually install a more
recent version of the compiler. Here is a description of the error if
an
Hey, Seth
I'm using npm less 1.3.3. That error isn't a known issue, no.
Is that the full stack trace/error report? Which files have you edited?
Thanks,
Carl
On Tue, Jul 30, 2013 at 2:39 PM, Seth Sims wrote:
> Dear Galaxy devs,
>
> I am attempting to create a style directory to match my
Fantastic, it works now, thank you! I was on 10200, now I'm testing the default
HEAD and all is looking good!
--
Benjamin Schuster-Böckler
Leadership Fellow for Bioinformatics
☎ +44 1865 617481
✉ benjamin.schuster-boeck...@ludwig.ox.ac.uk
Ludwig Institute for Cancer Research
University of Oxfor
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