Was velveth working prior to the patch (i.e. is it okay to use
extra_files_path on outputs?) or does some more work need to be done
at the infrastructure level to copy output extra files over in
run-as-user mode?
-John
On Thu, Dec 6, 2012 at 4:52 AM, Andreas Kuntzagk
wrote:
> Ok,
>
> while velve
Ok,
while velveth seems to work now, if I put the result into velvetg I get another
error:
Traceback (most recent call last):
File "/data/galaxy/galaxy-dist/lib/galaxy/jobs/runners/drmaa.py", line 175,
in queue_job
job_wrapper.prepare()
File "/data/galaxy/galaxy-dist/lib/galaxy/jobs/__
Sorry, I think I had not really restarted galaxy after making the change.
After I changed some logging options in universe_wsgi.ini and restarted it's
suddenly working.
So I can confirm your fix works.
Thank you for your help.
Andreas
On 05.12.2012 13:40, Andreas Kuntzagk wrote:
Hi,
Does not
Hi,
Does not work for me. I still get the same error.
If you need me to run more test, just email me.
regards, Andreas
On 04.12.2012 18:27, John Chilton wrote:
I don't have a velvet or a submit-jobs-as-user environment setup so I
cannot test this, but it seems like this should have a an easy f
I don't have a velvet or a submit-jobs-as-user environment setup so I
cannot test this, but it seems like this should have a an easy fix.
Can someone who is experiencing the problem try the attached patch or
has something like this been tried and there is some other problem?
-John
(09:43:01 AM) j
On Dec 4, 2012, at 9:30 AM, Andreas Kuntzagk
wrote:
> I see that this issue came up before by Oleksandr Moskalenko in October but
> was unresolved then.
> Is there a workaround now?
>
> regards, Andreas
The velvet wrapper is not going to be usable for real user jobs until someone
rewrites i
I see that this issue came up before by Oleksandr Moskalenko in October but was
unresolved then.
Is there a workaround now?
regards, Andreas
On 29.11.2012 11:47, Andreas Kuntzagk wrote:
Hi,
I enabled velvet on our local install. But when I try to use velveth, I get an
"Permission denied:
'/
Hi,
I enabled velvet on our local install. But when I try to use velveth, I get an
"Permission denied:
'/data/galaxy/galaxy-dist/database/files/027/dataset_27903_files'"
This file does not exist. Only file there is
/data/galaxy/galaxy-dist/database/files/027/dataset_27903_dat
regards, Andreas
