I have had it happen occasionally, but didn't pay attention to the
details. Perhaps I forget to put --reload sometimes. Also, it seems
that sometimes the Galaxy processes do not all stop with --stop-daemon.
I wrote the text below as a recipe for people in my lab to restart in
those situations, and I copied it here...
On 10/19/2012 8:24 AM, Nate Coraor wrote:
On Oct 18, 2012, at 1:43 AM, Todd Oakley wrote:
Yes, daemon/stop-daemon is the best way. However, to stop a process that was
not started with --daemon, this is what I do:
ps aux | grep galaxy
Identify the process numbers for 3 Galaxy processes, which will change every
time Galaxy is restarted.
For example this line:
galaxy 11638 0.0 0.0 63856 988 ? S Nov10 0:00 /bin/sh
./run.sh --reload
indicates the process has a number of 11638.
The 3 processes look like:
• /bin/sh ./run.sh --reload
• python ./scripts/paster.py serve universe_wsgi.ini --reload
• /home/galaxy/bin/python ./scripts/paster.py serve universe_wsgi.ini
--reload
Next, kill the three processes with this command:
kill -9 <ID1> <ID2> <ID3>
Hi Todd,
Are you unable to Ctrl+C when using --reload? Using --reload is actually my
workaround for this problem.
--nate
On Oct 17, 2012, at 10:17 PM, Enis Afgan wrote:
With a certain version of Python there's been an issue stopping Galaxy using
ctrl+C. You can use 'sh run.sh --daemon' to have the process run in the
background and then 'sh run.sh --stop-damemon' to stop it.
Hope this helps,
Enis
On Thu, Oct 18, 2012 at 4:12 PM, Sachit Adhikari <sachit.techner...@gmail.com>
wrote:
Hello Everyone. Ctrl+C or Ctrl+D doesn't stop the Galaxy server. In local
machine, I need to close the terminal and restart the terminal again. However,
in server I integrated several tools, now I need to restart the server to test
it. I used ./run.sh --reload doesn't restart the server and I can't stop the
server. How can I stop or restart Galaxy in the real working server? Thanks
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--
***************************************
Todd Oakley, Professor
Ecology Evolution and Marine Biology
University of California, Santa Barbara
Santa Barbara, CA 93106 USA
***************************************
Lab Website <http://labs.eemb.ucsb.edu/oakley/todd/>
Twitter: @UCSB_OakleyLab
*Recent Papers: *
* Pancrustacean Phylotranscriptomics
MBE Paper
<http://mbe.oxfordjournals.org/content/early/2012/09/12/molbev.mss216.abstract>
* Convergent Evolution in Cephalopoda
BMC Ev Biol <http://www.biomedcentral.com/1471-2148/12/129/abstract>
* Cnidocyte discharge regulated by opsin and light
BMC Biology Paper <http://tinyurl.com/7dajl2q> Scientific American
Write-up
<http://blogs.scientificamerican.com/science-sushi/2012/03/05/hydra-watch-what-they-eat/>
* Sponge Larvae Could be Guided by Cryptochrome
J Exp Biol. Paper <http://jeb.biologists.org/content/215/8/ii> |
Nature News
<http://www.nature.com/nature/journal/v484/n7393/full/484145d.html>
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