Re: [galaxy-user] [galaxy-dev] Peep view for history elements broken on IE?

2011-02-21 Thread Peter
On Fri, Feb 18, 2011 at 3:13 PM, Kanwei Li kan...@gmail.com wrote: All: I retested under IE7 and found the bugs you were mentioning. This has all been fixed on trunk by using a newer local storage library. The only IE7 issue that I am now aware of is when the tool pane is empty when using

Re: [galaxy-user] [galaxy-dev] Peep view for history elements broken on IE?

2011-02-21 Thread Peter
On Mon, Feb 21, 2011 at 9:48 AM, Peter pe...@maubp.freeserve.co.uk wrote: On Fri, Feb 18, 2011 at 3:13 PM, Kanwei Li kan...@gmail.com wrote: All: I retested under IE7 and found the bugs you were mentioning. This has all been fixed on trunk by using a newer local storage library. The only IE7

[galaxy-user] Problem Adding a Custom Build in Trackster

2011-02-21 Thread Liisa Koski
Hello, I am trying to 'Add a Custom Build' to my local instance of Galaxy/Trackster. There seems to be a problem when I enter the chromosome length info, both when I paste directly on the screen and when I use the upload button (for the .len file). After I press Submit I can see the Name and

Re: [galaxy-user] get wig file after tophat

2011-02-21 Thread David Matthews
Hi, You can get an equivalent visualisation from the IGV viewer by the Broad Institute - its under IGV tools and generates a tdf file from bam or sam files. This also gives a quick and easy way of looking at depth at any particular site and is very accessible. Cheers David On 21 Feb 2011,

Re: [galaxy-user] get wig file after tophat

2011-02-21 Thread Hiram Clawson
FYI: samtools + bam file + a bit of perl == to wiggle conversion: https://lists.soe.ucsc.edu/pipermail/genome/2010-December/024318.html - Original Message - From: Ying Zhang ying.zhang.yz...@yale.edu To: galaxy-u...@bx.psu.edu Sent: Monday, February 21, 2011 12:39:47 PM Subject:

Re: [galaxy-user] Installing Galaxy locally

2011-02-21 Thread Kanwei Li
Hi David, Yes, it is free and easy to set up, and we have instructions here: https://bitbucket.org/galaxy/galaxy-central/wiki/GetGalaxy Thanks! Kanwei On Mon, Feb 21, 2011 at 5:42 PM, David Matthews d.a.matth...@bristol.ac.ukwrote: Hi, I am not a computer person and very much like using

Re: [galaxy-user] [galaxy-dev] Peep view for history elements broken on IE?

2011-02-21 Thread Kanwei Li
Hi Peter, The changes are on tip, which aren't in galaxy-dist or on main yet. I will look into the other issues when I get access to my IE7 VM tomorrow. Thanks! K ___ The Galaxy User list should be used for the discussion of Galaxy analysis and other