[galaxy-dev] Manage local data admin tool failed with dbkey KeyError

2012-09-07 Thread Derrick Lin
Hi guys, I enabled the tool with enable_beta_job_managers = True, server runs fine. But after I clicked on Manage local data, it gave the following error: URL: http://pwbc.garvan.unsw.edu.au/galaxy_dev/data_admin/manage_data [^http://pwbc.garvan.unsw.edu.au/galaxy_dev/data_admin/manage_data ]

[galaxy-dev] Temporary directories

2012-09-07 Thread Joachim Jacob
Hi all, Just to share some experiences about temporary directories. - System /tmp is best put on a separate partition, with nosuid and noexec set. In /etc/fstab for example UUID=e35e1...d3/tmp ext4 noexec,nosuid,noatime,nodiratime0 0 - /tmp needs to be big, because it is used as

Re: [galaxy-dev] Adding tool to Galaxy

2012-09-07 Thread Akshay Bhat
Hi, Please follow the instructions on this page http://wiki.g2.bx.psu.edu/Admin/Tools/Add%20Tool%20Tutorial Best regards Akshay On Sep 7, 2012, at 3:01 PM, kauerb...@comcast.net wrote: Hello, Can anyone tell me how to add a tool to Galaxy, to be shown on the panel on the left? In

Re: [galaxy-dev] Automatic installation of third party dependancies

2012-09-07 Thread Greg Von Kuster
Hello Lance, See my inline comments. On Sep 4, 2012, at 3:15 PM, Lance Parsons wrote: I've put together a tool wrapper for the htseq-count script that is part of the HTSeq python package and uploaded that to the tool shed. However, I have discovered that the tool dependancies do not

[galaxy-dev] Galaxy September 7, 2012 Distribution News Brief

2012-09-07 Thread Jennifer Jackson
*Galaxy September 7, 2012 Distribution News Brief* http://wiki.g2.bx.psu.edu/DevNewsBriefs/2012_09_07 /*Highlights:*/ * *NCBI BLAST+ has moved* from the Galaxy distribution to the Galaxy's Main Tool Shed. * *Tool Shed* *is now running Mercurial version 2.2.3*. Many updates