Hello Assaf,
The Galaxy admin page ( <your galaxy="" url="">/admin ) enables you to
reload
a tool while Galaxy is running. The admin password is configured in
the
main Galaxy config, and must be entered each time you reload a tool.
The way to do this depends on the job runner(s) that are currently
being
used ( if any ). If the PBS job runner is being used, you can use the
qstat command from the command line, something like this. If there
are
jobs running on the cluster, the Galaxy server can still be stopped
and
restarted and Galaxy will find the running jobs and re-add them to the
Galaxy job queue.
g2main@frisell:~$ qstat
Job id Name User Time Use S Queue
102602.lonnie 174202 g2main 172:43:5 R
batch
102748.lonnie 174335 g2main 168:02:4 R
batch
103673.lonnie 175134 g2main 121:24:0 R
batch
103675.lonnie 175135 g2main 121:22:2 R batch
Another option is to perform a select from your database, something
like
the following. I will have a Galaxy report added to the code base
shortly that will show this information as well.
g2main@frisell:~$ psql galaxy_main
Welcome to psql 8.1.11, the PostgreSQL interactive terminal.
Type: \copyright for distribution terms
\h for help with SQL commands
\? for help with psql commands
\g or terminate with semicolon to execute query
\q to quit
galaxy_main=> select id, state from job where state = 'new' or state =
'queued' or state = 'running';
id | state
174202 | running
174335 | running
175134 | running
175135 | running
(4 rows)
The local job runner may be a bit trickier. If you are using the
local
job runner for data retrieval from external sources, a "ps" is
probably
the best option. If you stop Galaxy while a job is running on the
local
job runner, that job will be stopped in an "error" state.
g2main@frisell:~$ ps -ef | grep python
g2main 12519 1 4 Jun06 ? 03:46:33 python -ES
./scripts/paster.py serve universe_wsgi.ini --daemon
