reload a tool's configuration from command line
Hello, I was wondering if there is a way to trigger the reload of a tool's configuration from command line. We are using a tool that loads .xml files from tool-data. The .xml files get modified by a script ran by cron frequently. Right now we reload the tool config via the admin interface but ideally we could integrate the reload in the cron job. Best regards Tim
On Mar 22, 2012, at 11:28 AM, Tim-Christoph Roloff wrote:
Hello,
I was wondering if there is a way to trigger the reload of a tool's configuration from command line. We are using a tool that loads .xml files from tool-data. The .xml files get modified by a script ran by cron frequently. Right now we reload the tool config via the admin interface but ideally we could integrate the reload in the cron job.
Best regards
Tim
Hi Tim, A few people have done it by creating a script that acts as a web client and performs the function via the web interface. There's no direct way to do it from the command line without restarting the server, unfortunately. --nate
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I just did a test, and this works : First login, so you get your login cookie : curl --cookie-jar galaxy_cookie.txt --data-ascii 'email=jan.vanhaarst%40wur.nl&webapp=galaxy&password=geheim&login_button=Login' http://dev1.ab.wurnet.nl:8086/user/login Then use that cookie to login, and reload your tool: curl --silent --cookie galaxy_cookie.txt --data-ascii "tool_id=sffinfo&reload_tool_button=Reload" http://dev1.ab.wurnet.nl:8086/admin/reload_tool | grep "donemessage" If all went well, you get this back : <div class="donemessage">Reloaded the tool:<br/><b>name:</b> sffinfo<br/><b>id:</b> sffinfo<br/><b>version:</b> 1</div> HTH, Jan
-----Original Message----- From: galaxy-dev-bounces@lists.bx.psu.edu [mailto:galaxy-dev- bounces@lists.bx.psu.edu] On Behalf Of Nate Coraor Sent: maandag 26 maart 2012 17:22 To: Tim-Christoph Roloff Cc: galaxy-dev@lists.bx.psu.edu Subject: Re: [galaxy-dev] reload a tool's configuration from command line
On Mar 22, 2012, at 11:28 AM, Tim-Christoph Roloff wrote:
Hello,
I was wondering if there is a way to trigger the reload of a tool's configuration from command line. We are using a tool that loads .xml files from tool-data. The .xml files get modified by a script ran by cron frequently. Right now we reload the tool config via the admin interface but ideally we could integrate the reload in the cron job.
Best regards
Tim
Hi Tim,
A few people have done it by creating a script that acts as a web client and performs the function via the web interface. There's no direct way to do it from the command line without restarting the server, unfortunately.
--nate
Hi Jan This is brilliant - it is always the simple solutions you overlook - thank you very much! May I just add a modified version, in case you use external authentication. There is no point to create a cookie, since you need to provide userid (not the e-mail) and password each time. So a simple line using the '-u' option will do: curl --silent --data-ascii "tool_id=my_tool&reload_tool_button=Reload" -u userid:******** http://mygalaxy.ch/admin/reload_tool Thanks again, Hans On 03/27/2012 11:27 AM, Haarst, Jan van wrote:
I just did a test, and this works :
First login, so you get your login cookie :
curl --cookie-jar galaxy_cookie.txt --data-ascii 'email=jan.vanhaarst%40wur.nl&webapp=galaxy&password=geheim&login_button=Login' http://dev1.ab.wurnet.nl:8086/user/login
Then use that cookie to login, and reload your tool:
curl --silent --cookie galaxy_cookie.txt --data-ascii "tool_id=sffinfo&reload_tool_button=Reload" http://dev1.ab.wurnet.nl:8086/admin/reload_tool | grep "donemessage"
If all went well, you get this back :
<div class="donemessage">Reloaded the tool:<br/><b>name:</b> sffinfo<br/><b>id:</b> sffinfo<br/><b>version:</b> 1</div>
HTH,
Jan
-----Original Message----- From: galaxy-dev-bounces@lists.bx.psu.edu [mailto:galaxy-dev- bounces@lists.bx.psu.edu] On Behalf Of Nate Coraor Sent: maandag 26 maart 2012 17:22 To: Tim-Christoph Roloff Cc: galaxy-dev@lists.bx.psu.edu Subject: Re: [galaxy-dev] reload a tool's configuration from command line
On Mar 22, 2012, at 11:28 AM, Tim-Christoph Roloff wrote:
Hello,
I was wondering if there is a way to trigger the reload of a tool's configuration from command line. We are using a tool that loads .xml files from tool-data. The .xml files get modified by a script ran by cron frequently. Right now we reload the tool config via the admin interface but ideally we could integrate the reload in the cron job.
Best regards
Tim
Hi Tim,
A few people have done it by creating a script that acts as a web client and performs the function via the web interface. There's no direct way to do it from the command line without restarting the server, unfortunately.
--nate
___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at:
participants (4)
-
Haarst, Jan van -
Hans-Rudolf Hotz -
Nate Coraor -
Tim-Christoph Roloff