Hi Andrew,<br><br>Thanks for the update on DIYA and DIYG. I'm pretty well convinced that Galaxy is on it's way to total worldwide domination. The Galaxy group has a human/vertebrate emphasis historically, so prokaryote functionality would be a great addition.<br>
<br>However, I don't (yet) see Galaxy as a DIYA replacement. Until Galaxy has APIs for programmatically using it, I think DIYA still meets a separate need. <br><br>GMOD has an on-off relationship with virtual appliances. We certainly think they are a grand idea and use them in our courses, but I don't think we have ever produced a production ready system. We do currently have a grant proposal to cloud-enable GMOD components like GBrowse and JBrowse. Please send an e-mail to <a href="mailto:help@gmod.org">help@gmod.org</a>, if and when it looks like you may start down this path.<br>
<br>Good to hear from you,<br><br>Dave C<br><br><br><div class="gmail_quote">On Fri, May 21, 2010 at 5:56 AM, andrew stewart <span dir="ltr"><<a href="mailto:andrew.c.stewart@gmail.com">andrew.c.stewart@gmail.com</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin: 0pt 0pt 0pt 0.8ex; border-left: 1px solid rgb(204, 204, 204); padding-left: 1ex;">Hey Dave,<div><br></div><div>That sounds great. Let me know if you need me to do anything.</div>
<div><br></div><div>I apologize for the news being slow on the DIYA front, I switched jobs back in January and am not really in the microbial annotation business anymore.</div>
<div><br></div><div>However, I have some good news! I was attending the Galaxy Developers Conference this past weekend at CSH, and mused about ditching the pipeline aspect of DIYA and turning its individual components into a set of Galaxy tools (James Taylor was very supportive of this idea, mentioning that there is a lack of annotation tools in Galaxy). So that's the direction I see DIYA going in the future. </div>
<div><br></div><div>Do It Yourself Genomics (DIYG, the sourceforge project that DIYA falls under) I would like to see finally develop into a Virtual Appliance for distribution that bundles DIYA with Galaxy, GBrowse, etc, providing researchers a very easy-to-deploy solution to take their NGS data from raw sequence all the way to a fully annotated GMOD sequence database instance. (Probably also offer a 'worker node' image for deployment across a cluster or in something like Amazon's EC2)</div>
<div><br></div><div>I know there have been some GMOD virtual machine projects in the past. I'd be very interested in synching up with anyone who still maintains an active interest in this area.</div><div><br></div><div>
<br></div><div>cheers,</div><div>Andrew</div><div><div></div><div class="h5"><div><br><br><div class="gmail_quote">On Thu, May 20, 2010 at 11:46 PM, Dave Clements <span dir="ltr"><<a href="mailto:clements@nescent.org" target="_blank">clements@nescent.org</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin: 0pt 0pt 0pt 0.8ex; border-left: 1px solid rgb(204, 204, 204); padding-left: 1ex;">Hi Andrew,<br><br>The mailing list search function at SourceForge is notoriously frustrating. To hopefully address this I'm setting up an archive of GMOD mailing lists at Nabble.com. See <br>
<br> <a href="http://gmod-generic-model-organism-database-project.827538.n3.nabble.com/" target="_blank">http://gmod-generic-model-organism-database-project.827538.n3.nabble.com/</a><br clear="all">
<br>Would you like the DIYA mailing lists to be archived at Nabble? I can set this us as a GMOD subproject. Or, you could set it up as a separate DIYG project at Nabble. Either way, we would link to it from the GMOD web site.<br>
<br>After I'm done getting Nabble setup, I'll do the same thing at Gmane.org. I'll assume that anything I do (or don't do) for DIYA at Nabble, I'll also do (or don't do) at Gmane as well.<br><br>
Dave C.<br><font color="#888888">
<br>-- <br><a href="http://gmod.org/wiki/GMOD_News" target="_blank">http://gmod.org/wiki/GMOD_News</a><br><a href="http://gmod.org/wiki/Calendar" target="_blank">http://gmod.org/wiki/Calendar</a><br><a href="http://gmod.org/wiki/Help_Desk_Feedback" target="_blank">http://gmod.org/wiki/Help_Desk_Feedback</a><br>
</font></blockquote></div><br></div>
</div></div></blockquote></div><br><br clear="all"><br>-- <br><a href="http://gmod.org/wiki/GMOD_News">http://gmod.org/wiki/GMOD_News</a><br><a href="http://gmod.org/wiki/Calendar">http://gmod.org/wiki/Calendar</a><br><a href="http://gmod.org/wiki/Help_Desk_Feedback">http://gmod.org/wiki/Help_Desk_Feedback</a><br>