Re: [galaxy-dev] Dependencies not working on toolshed?

2014-10-27 Thread Peter Cock
On Fri, Oct 24, 2014 at 10:17 PM, Lukasse, Pieter wrote: > Hi Bjoern, John, > > thanks, this worked! > > So: I have to add a repository dependency to my tool_dependencies.xml > file and NOT to my repository_dependencies.xmlI must say it is somewhat > confusing. Somehow I had this idea that too

Re: [galaxy-dev] My CloudMan EC2 instance won't start Galaxy

2014-10-27 Thread Jim White
Hi Enis! Turns out I was using a too small instance type. Since I was just checking to see if I could set it up I was using t1.micro and some other larger one as well. Anyhow, when I tried today I made sure to use something more reasonable (m3.medium) and it fired up just fine. Thanks, Jim On

[galaxy-dev] bowtie2: no stderr output

2014-10-27 Thread Elizabeth Chia
Dear all Usually the alignment statistics from bowtie2 will be printed to the stderr file, however, on the local instance, the stderr file is empty after alignment. It still does the alignment, but the statistics are not printed out. This is my hg summary: parent: 13802:f7dd0060c296 latest_2014.