Hi Liram

I was suggesting: instead of copying the existing Galaxy directory into another location. Download and install a new Galaxy installation in a separate location on your file system.


for the installation procedure, see:

http://wiki.g2.bx.psu.edu/Admin/Get%20Galaxy

all you need to do in the new installation is changing the port number. It will create its own file system and by default it will use its own SQLite database. Hence, there should be no interference with your existing, production Galaxy installation.

Regards, Hans


On 12/21/2011 09:16 AM, liram_va...@agilent.com wrote:
Hi Hans,

Thank you for your quick reply.

Sorry, But I'm a "rookie" Galaxy user,
So may you pls explain me in details the meaning by " running a second Galaxy server 
in parallel using a fresh check-out "?
Thank a lot for your assistance!

Liram

-----Original Message-----
From: Hans-Rudolf Hotz [mailto:h...@fmi.ch]
Sent: Monday, December 19, 2011 7:01 PM
To: VARDI,LIRAM (A-Labs,ex1)
Cc: Jennifer Jackson; Galaxy Dev; BEN-DOR,AMIR (A-Labs,ex1)
Subject: Re: [galaxy-dev] Can not clean my galaxy datasets

Hi Liram

This sounds like the two Galaxy server use the same (PostgreSQL/MySQL) database.

Before copying your existing Galaxy server, you might wanna start with running 
a second Galaxy server in parallel using a fresh check-out.

Regards, Hans


Have you tried to run a

On 12/19/2011 04:08 PM, Jennifer Jackson wrote:


On 12/19/11 6:15 AM, liram_va...@agilent.com wrote:
Hi Jennifer,

Thank you again for the quick reply in my last issue.

I have another Galaxy problem and I hope you will be able to assist.
Because I am developing my Galaxy server while there are members in
my group that are using this Galaxy instance in parallel, I am trying
to create another Galaxy process (instance), which will be used only
for testing...

Therefore, I created a copy of Galaxy directory in other location
(let
say: /galaxy-dist_test)
And changed the listening port in "universe_wsgi.ini" to another port
(8081).
Then, I tried to run both of Galaxy instances in parallel.
(One is listening on port 8080 and the other is on 8081)

The problem is occurred when I send a job for a run in one of the
instance (let say: the one that run on 8080), Then, It cause to the
another Instance (the one on port 8081) to collapse (And the history
is disappeared...)

What is the problem?
How can I solve it?
How can I create two different and self-contained galaxy servers on
the same computer?

I tried also to use the instructions :
http://wiki.g2.bx.psu.edu/Admin/Config/Performance/Web%20Application%
20Scaling

But it was not helpful to my problem...

Thank you a lot!
Liram

-----Original Message-----
From: Jennifer Jackson [mailto:j...@bx.psu.edu]
Sent: Tuesday, November 29, 2011 4:42 PM
To: VARDI,LIRAM (A-Labs,ex1)
Cc: galaxy-...@bx.psu.edu
Subject: Re: [galaxy-dev] Can not clean my galaxy datasets

Hello Liram,

Perhaps the allow_user_dataset_purge option has not been set to True
in universe_wsgi.ini?

Please see this wiki for details:
http://wiki.g2.bx.psu.edu/Admin/Disk%20Quotas#Quotas

Hopefully this helps, but please let us know if you need more
assistance,

Best,

Jen
Galaxy team

On 11/29/11 5:44 AM, liram_va...@agilent.com wrote:
Hello,

My name is Liram Vardi and I'm using local Galaxy instance.

Anyway, I can't clean my deleted datasets from my own locally disk.

When I am trying to delete dataset, as was explained in
http://wiki.g2.bx.psu.edu/Learn/Managing%20Datasets#Actions,

First, I used the "delete 'X' icon" near the dataset to delete the
dataset,

Then, when I go to "Options ->  Show Deleted Datasets", I can see my
"deleted dataset" on the list

with the note: /"This dataset has been deleted. Click _here_ to
undelete it"//*but I don't get the also the option "or _here_ to
immediately remove it from disk."*/.

Also, when I use the option "Options ->  Purge Deleted Datasets", I'm
getting a message "0 datasets have been deleted permanently" and

my deleted dataset still stays in the "Options ->  Show Deleted Datasets"
menu list.

I also tried to clear the history, but when I'm doing that, the
"using X Mb" tab on the upper right corner is still not reset.

What is the problem?

Thanks a lot for your help!

Liram



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http://galaxyproject.org/wiki/Support


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