Re: [galaxy-dev] bai file missing in history export?!

2012-12-17 Thread Bossers, Alex
Thanks. We'll test it shortly. These are usually small files (not the actual index). Alex -Oorspronkelijk bericht- Van: Jeremy Goecks [mailto:jeremy.goe...@emory.edu] Verzonden: vrijdag 14 december 2012 17:59 Aan: Bossers, Alex CC: galaxy-dev@lists.bx.psu.edu Onderwerp: Re: [galaxy-dev] b

Re: [galaxy-dev] Integrating generated graphics from cli tool?

2012-12-17 Thread Bossers, Alex
Samual, We do the same as Peter mentioned. We generate pdfs or you could generate a mixed datatype html file linking to seperate documents/images (like the fastQC tool). If you get the export to png working on a headless server without desktop/gui..please let me know. In our hands it only works o

Re: [galaxy-dev] Toolshed install 404

2012-12-17 Thread Greg Von Kuster
Hello Kyle, The Galaxy main tool shed tracks the Galaxy-dist repo on bitbucket, and it looks like you are tracking Galaxy-central in your local Galaxy instance. Tool shed features have evolved rapidly over the past year, which has made it difficult to keep a stable communication layer between

Re: [galaxy-dev] Updating help text for a tool shed repository

2012-12-17 Thread Lance Parsons
Thanks for looking into this Greg. The environment where I'm having this problem is our testing and production systems. Both environments are CentOS release 5.8 (Final) with Mercurial version 2.4.1. Interestingly, when I tried the same thing with a development setup on my OSX box (10.6.8) w

[galaxy-dev] Parallelism tags and Best practices.

2012-12-17 Thread James
Hi All, I was wondering how to add parrelism tags based on best practices recommended by the tool providers. E.g with IMPUTE at the moment split the file into region size that is recommended by the tool providers and then run each section sequentially. Would it be possibly to add it into th