Hi again,<div><br></div><div>I&#39;m now stuck trying to get the samtools app&#39;s to work.  I&#39;ve finally gotten the bwa and bowtie tools to run an alignment, but my attempts to convert the resulting sam file to bam, using sam_to_bam fails.  The error I get in the browser is:</div>

<div><br></div><div><span class="Apple-style-span" style="font-family: verdana, arial, helvetica, clean, sans-serif; font-size: 12px; color: rgb(48, 48, 48); line-height: 14px; ">An error occurred running this job: <i>No sequences are available for &#39;hg18&#39;, request them by reporting this error.</i></span></div>

<div><br></div><div>The error, (after searching through the output for the command), seemed to suggest that I was missing an &#39;egg&#39;: This was the output:</div><div><br></div><div><div>python /home/perin/galaxy-dist/tools/samtools/sam_to_bam.py --input1=/home/perin/galaxy-dist/database/files/000/dataset_70.dat --dbkey=hg18 --ref_file=&quot;None&quot; --output1=/home/perin/galaxy-dist/database/files/000/dataset_72.dat --index_dir=/home/perin/galaxy-dist/tool-data</div>

<div>Traceback (most recent call last):</div><div>  File &quot;/home/perin/galaxy-dist/tools/samtools/sam_to_bam.py&quot;, line 17, in ?</div><div>    from galaxy import eggs</div><div>ImportError: No module named galaxy</div>

<div><br></div><div>I&#39;m guessing I&#39;m either missing a config parameter that tells samtools how to work, or that I need to scramble another egg.  Not sure, however, and was hoping for some help.  I can&#39;t seem to find anything on the web.  Thanks in advance.</div>

<div><br></div><div>Juan Perin</div><div><br></div></div>