Re: [galaxy-dev] Specifying _JAVA_OPTIONS in job_conf.xml

2014-04-23 Thread Björn Grüning
Hi John, I tested it a day long on our server and it seems to work. It actually a nice solution, as you can do many things with it I think. Maybe it's worth to document, that env ..'foo bar'/env is necessary. The ' is important. Thanks! Bjoern Am 22.04.2014 22:01, schrieb Björn Grüning:

[galaxy-dev] Specifying _JAVA_OPTIONS in job_conf.xml

2014-04-22 Thread Björn Grüning
Hi, to specify -Xmx and -Xms for java based programs I set my preferred values to $_JAVA_OPTIONS and include _JAVA_OPTIONS as nativeSpecification with -v _JAVA_OPTIONS. That worked good so far, but the downside is that I can not have different options for different tools. Is there a trick I

Re: [galaxy-dev] Specifying _JAVA_OPTIONS in job_conf.xml

2014-04-22 Thread John Chilton
You can create multiple variants of the 10G_memory tool with different native specifications right? Does this work around result in too much XML? Dynamic destinations could also be used - if you are interested I could post a demo rule that you might be able to use. The memory card referenced

Re: [galaxy-dev] Specifying _JAVA_OPTIONS in job_conf.xml

2014-04-22 Thread Björn Grüning
Hi John, Am 22.04.2014 20:45, schrieb John Chilton: You can create multiple variants of the 10G_memory tool with different native specifications right? Does this work around result in too much XML? Dynamic destinations could also be used - if you are interested I could post a demo rule that you

Re: [galaxy-dev] Specifying _JAVA_OPTIONS in job_conf.xml

2014-04-22 Thread John Chilton
On Tue, Apr 22, 2014 at 1:59 PM, Björn Grüning bjoern.gruen...@gmail.com wrote: Hi John, Am 22.04.2014 20:45, schrieb John Chilton: You can create multiple variants of the 10G_memory tool with different native specifications right? Does this work around result in too much XML? Dynamic

Re: [galaxy-dev] Specifying _JAVA_OPTIONS in job_conf.xml

2014-04-22 Thread Björn Grüning
:) Speechless ... I will stress test it tomorrow! Am 22.04.2014 21:24, schrieb John Chilton: On Tue, Apr 22, 2014 at 1:59 PM, Björn Grüning bjoern.gruen...@gmail.com wrote: Hi John, Am 22.04.2014 20:45, schrieb John Chilton: You can create multiple variants of the 10G_memory tool with