[galaxy-dev] Setup questions

2012-02-20 Thread Brami, Daniel
Hi folks, I am trying to setup a local copy of Galaxy and I am running into a few issues with which I would greatly appreciate some help. 1. I am trying to setup my "built-in" indices for bowtie mapping and I have been following the instructions given at http://wiki.g2.bx.psu.edu/Admin/N

[galaxy-dev] universe_wsgi.ini

2012-02-23 Thread Brami, Daniel
I have been struggling with setting up my local Galaxy instance for the past two days. Can anyone post a copy of their universe_wsgi.ini file , with the sensitive info commented / removed? I need an instance that can handle local files greater than 2 GB (ie: does not go through POST method of

Re: [galaxy-dev] universe_wsgi.ini

2012-02-24 Thread Brami, Daniel
actual tab character. Depending on your editor, you might want to make sure the tab key doesn't print like 4 spaces instead of \t. Hope that helps Best, L-A Le 23/02/2012 19:47, Brami, Daniel a écrit : I have been struggling with setting up my local Galaxy instance for the past two days. Can

[galaxy-dev] toolrunner / xml parse

2012-03-28 Thread Brami, Daniel
I am getting an error upon my local Galaxy startup which I suspect is causing an invalid tool runner entry in my left hand menu (my tool url is: http://localhost:8081/tool_runner/index instead of http://localhost:8081/tool_runner?tool_id=FLASHforFASTQ) Here is the error I get: galaxy.tools DEB

Re: [galaxy-dev] toolrunner / xml parse

2012-03-28 Thread Brami, Daniel
That did it! Silly mistake - thanks so much!! -Original Message- From: Dannon Baker [mailto:dannonba...@me.com] Sent: Wednesday, March 28, 2012 2:21 PM To: Brami, Daniel Cc: galaxy-dev@lists.bx.psu.edu Subject: Re: [galaxy-dev] toolrunner / xml parse > > These inputs

Re: [galaxy-dev] Output files from Galaxy

2012-04-05 Thread Brami, Daniel
Hi Jianpeng, The ouput file location is specified in the "file_path =" section of the 'universe_wsgi.ini' filr. Hope this helps. Daniel From: galaxy-dev-boun...@lists.bx.psu.edu [mailto:galaxy-dev-boun...@lists.bx.psu.edu] On Behalf Of Xu, Jianpeng Sent: Tuesday, April 03, 2012 11:32 AM To: ga