[galaxy-dev] googlebot

2011-12-12 Thread SHAUN WEBB
Hi, my paster.log is full of errors relating to a googlebot trying to access a library file. I noticed a robots.txt file in the static folder configured as such. User-agent: * Disallow: / I thought this would stop all bots accessing all files. Should this be configured differently?

Re: [galaxy-dev] Divide FASTQ file into paired and unpaired reads (version 0.0.4) - naming suffix not recognized

2011-12-12 Thread Liisa Koski
Hi Peter, Thanks! The fix worked with the new Illumina format. Your help is much appreciated :) Cheers, Liisa Liisa Koski Bioinformatics Programmer From: Peter Cock p.j.a.c...@googlemail.com To: Liisa Koski liisa.ko...@dnalandmarks.ca Cc: galaxy-dev galaxy-...@bx.psu.edu Date: 2011-12-12

Re: [galaxy-dev] Galaxy on GPU

2011-12-12 Thread Nate Coraor
On Dec 9, 2011, at 5:58 PM, Isabelle Phan wrote: Hello, Can any applications in Galaxy use GPU hardware (e.g. for processing next gen data)? Hi Isabelle, None of the tools bundled in Galaxy currently make use of a GPU because afaik, none of them support it (although there have been some

Re: [galaxy-dev] How and where to install tool dependencies

2011-12-12 Thread Nate Coraor
On Dec 9, 2011, at 4:34 PM, Josh Nielsen wrote: Hello, I have a question which I have not seen specifically addressed in the online Galaxy wiki documentation about how to integrate tools (dependencies) into Galaxy. I have implemented a locally managed instance of Galaxy that my business

Re: [galaxy-dev] Tools accessing web services

2011-12-12 Thread Daniel Blankenberg
Hi Amelia, Sorry for the delay in reply. Could you provide a copy of your xml file and we can take a look. Thanks for using Galaxy, Dan On Nov 21, 2011, at 12:26 PM, Amelia Ireland wrote: Can anyone answer this, please, or point me to the relevant documentation? On 07/11/2011, Amelia

Re: [galaxy-dev] How and where to install tool dependencies

2011-12-12 Thread Josh Nielsen
Thanks Nate! Updated documentation is always welcome and useful. I appreciate the clarifications. -J On Mon, Dec 12, 2011 at 10:18 AM, Nate Coraor n...@bx.psu.edu wrote: On Dec 9, 2011, at 4:34 PM, Josh Nielsen wrote: Hello, I have a question which I have not seen specifically addressed

Re: [galaxy-dev] How and where to install tool dependencies

2011-12-12 Thread Josh Nielsen
Thanks Jeremy, That does clear quite a few things up. I will probably take the route of just adding the directories that contain the tool executables to my path. And I guess I'll just pay attention to which tools are Java based and copy the executables under the jars directory. Thanks for looking

Re: [galaxy-dev] administrator Interface.

2011-12-12 Thread James Boocock
Hi, I have setup a galaxy production server and created a admins.txt file with comma separated account names. When running galaxy and logged into one of the activated accounts I cannot view the interface. Configs Listed Below Cheers James. #Config File file:universe config