I am attempting to run Cufflinks on Galaxy main to analyze my E. coli RNAseq data.  I have mapped my reads using an outside program (Genious) and uploaded the resulting BAM file.  I also have uploaded the E. coli annotations as a gtf file.  However when I attempt to run Cufflinks using my annotations it just stays on &quot;Job is waiting to run&quot; for hours.  If I click on &quot;Edit attributes&quot;, I see an error message &quot;Required metadata values are missing&quot;.  Does this mean that my files are somehow incomplete and cufflinks will never run, or do I just need to wait longer?  When searching around the mailing lists I saw others have had issues with bacteria due to its circular chromosome, and was wondering if this might somehow be related.  Thanks.<br>

<br>Rachel  <br>