Re: [galaxy-dev] moving the galaxy-dist folder structure

2011-10-14 Thread Joseph Hargitai
Ross, i am looking through three of our instances and none has any jar files in the /shared/jar/ folder. so it happens, i also cannot bring up a new cloud instance either to verify this issue. j From: Ross [ross.laza...@gmail.com] Sent: Thursday,

[galaxy-dev] galaxy cloud install hangs

2011-10-14 Thread Joseph Hargitai
Hi, trying to bring up a new instance. 1, remove old cm from S3 bucket 2, bring up new 3, get console 4, SGE and fs running 5,Database and galaxy are not running 6, on /mnt i see /mnt and galaxyData East 1c xy Cloudman Admin | Report bugs | Wiki | Screencast Only up to the most

[galaxy-dev] Tab sniffer

2011-10-14 Thread SHAUN WEBB
Hi. I am using the upload tool to enter some test data in the text box and checking the convert spaces to tabs box. However Galaxy is setting the file as txt rather than tabular, this seems to be a new bug. Shaun -- The University of Edinburgh is a charitable body, registered in Scotland,

[galaxy-dev] MAF tools issues on Galaxy

2011-10-14 Thread Marcin Jakalski
Hi, I want to share a few issues on the performance of tools for working with MAF alignments in the Fetch Alignments section in Galaxy. *The first issue* I have is with the Stitch MAF blocks given a set of genomic intervals tool. For a given set of genomic intervals I use this tool to obtain, in

Re: [galaxy-dev] Accept-Ranges: bytes for

2011-10-14 Thread Kip Bodi
Hi Brad, They're binary BAM files. I followed the section below, but perhaps I missed something. Thanks for the clarification on the Paste server, and I think I'll try nginx next if I can't get forwarding through Apache to work. Cheers, -Kip On Thu, Oct 13, 2011 at 1:17 PM, Brad Chapman