Try http://test.g2.bx.psu.edu/
chris
On Nov 15, 2011, at 3:13 PM, Yan Luo wrote:
Hi, Dannon,
Thanks for your response. I just tried test.bx.psu.edu, but it was not
available. Could you please double check the address?
Looking forward to hearing from you.
Thanks,
Yan
On Tue,
Yan, sorry, I lost track of this email. For future reference, try to keep the
list cc'd instead of just replying to individuals, that way 1) we can track the
status of requests in our ticketing system without losing track, and 2) other
people can pitch in and help answer.
12) Yes, we provide
The correct address is test.g2.bx.psu.edu, there was a missing .g2 in one of
the references to the test server in my previous email. Like I mentioned
before, the test server is for primarily for testing galaxy and new tools and
shouldn't really be used for 'real work'.
-Dannon
On Nov 15,
Hi, Dannon,
Thanks for your response. I just tried test.bx.psu.edu, but it was not
available. Could you please double check the address?
Looking forward to hearing from you.
Thanks,
Yan
On Tue, Nov 15, 2011 at 3:53 PM, Dannon Baker dannonba...@me.com wrote:
Yan, sorry, I lost track of this
Yan,
1. Right now, we host and you can use usegalaxy.org ( main.g2.bx.psu.edu ),
and test.bx.psu.edu. Main will be the most reliable server and what we
recommend you use, but test has a few beta tools that aren't available on main
yet. That said, test.g2.bx.psu.edu is very much for testing
Dear Nate,
Thanks a lot, I will check them.
Best Wishes,
Yan
On Fri, Apr 1, 2011 at 11:07 AM, Nate Coraor n...@bx.psu.edu wrote:
Yan Luo wrote:
Dear Nate,
Thanks for your information, I will use it next times. By the way, how do
we
know the status of Galaxy's database (mysql)? I
Yan Luo wrote:
Dear Nate,
We have a new issue to use Galaxy. When we login use a general user account,
we found:
(1) When we upload six fastq files via URL, three of them can be uploaded
successfully while the other three can't be uploaded.
Hi Yan,
Could you expand the history items so
Dear Nate and developers,
Could you please let me know if you have any solution for my questions and
several attachments sent to you last week? Someone web pages don't work
well.
Looking forward to hearing from you.
Best Wishes,
Yan
On Mon, Feb 28, 2011 at 4:45 PM, Yan Luo luoma...@gmail.com
Dear Nate,
Yes, you are right, for some reason, we couldn't cd to the folder. It is
fixed and I restart the Galaxy. The only thing is that it needs about 10
minutes to start. I remembered it is a little fast last week. Is there any
problem? Anyway, Galaxy works.
Thanks,
Yan
On Mon, Feb 14,
Yan Luo wrote:
Dear Nate,
Why did you say we have 3 paths? We have a link from
/home/kangtu/Downloads/galaxy-dist
lrwxrwxrwx 1 kangtu admin36 2010-11-01 17:07 galaxy-dist -
/home/kangtu/data/tools/galaxy-dist/
from /home/kangtu/data, we have other link as follows.
Yan Luo wrote:
Dear Nate,
Thanks for your quick response, my colleagues of a small group are waiting
for using galaxy, so it is better if we can restart it asap.
1. If I try to set up a virtualenv, do I need to recompile bx-python? I am
not familiar with Python, if we need to do it, could
Dear Nate,
Sorry for a lot of questions. To set up virtualenv, should I enter the root
folder of galaxy-dist and run the commands for steps a, b and c?
For step b,
I only need to run python virtualenv.py --no-site-packages galaxy_env
from root folder of galaxy-dist(don't need to run
Dear Nate,
Why did you say we have 3 paths? We have a link from
/home/kangtu/Downloads/galaxy-dist
lrwxrwxrwx 1 kangtu admin36 2010-11-01 17:07 galaxy-dist -
/home/kangtu/data/tools/galaxy-dist/
from /home/kangtu/data, we have other link as follows.
lrwxrwxrwx 1 kangtu kangtu 28
Yan Luo wrote:
Dear Nate,
I just run the first step and must use sudo to wget and it is ok.
Otherwsie, I can't write (Cannot write to `virtualenv.py.1' (Success).)
I would strongly advise against using sudo for any part of this, since
this is how permissions get screwed up. If you don't
Yan Luo wrote:
Dear Nate,
When I run . /home/kangtu/data/tools/galaxy-dist/galaxy_env/bin/activate
directly,
kangtu@dscbc-compute:~/Downloads/galaxy-dist/galaxy_env/bin$ .
/home/kangtu/data/tools/galaxy-dist/galaxy_env/bin/activate
Yan Luo wrote:
Dear Nate,
It is running, I am a little nervous, hope it is well. By the way, I forgot
set it to the background. If it can start, should I kill the process again,
start screen, and './run.sh'? Do I need any activate and ./run/sh?
If you close the terminal in which Galaxy is
Dear Nate,
I just used screen, and restarted the galaxy, it works. It is perfect, and
I also found that some features can't be used before, when I restart it,
everything is fine.
Have a wonderful weekend!
Best Wishes,
Yan
___
To manage your
Dear Nate,
It is great suggestion. I copy my root folder of galaxy as follows, could
you please let me know if I need to change them to one user kangtu/admin.
I hope we new user register can work today after I restart.
-
kangtu@dscbc-compute:~/Downloads/galaxy-dist$ ls -la
total 1688
Yan Luo wrote:
Dear Nate,
Please find the following errors, it is the newest, and our restart is
stopped. I hope we can get the solution from you as soon as possible.
Hi Yan,
Your last 4 messages included 3 different paths to Galaxy. It seems as
though there are quite a few copies of
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