<div dir="ltr"><div class="im" style="font-family:arial,sans-serif;font-size:13px"><div style="font-size:12.727272033691406px">Hi,</div><div style="font-size:12.727272033691406px"><br></div><div style="font-size:12.727272033691406px">
<span style="font-size:12.727272033691406px;color:rgb(34,34,34)">I've installed a local version of Ensembl release 70 following the provided documentation and everything works fine except the Regulation tools (</span><a href="http://www.ensembl.org/Homo_sapiens/Regulation/Cell_line?db=funcgen;fdb=funcgen;r=17:46617590-46621119;rf=ENSR00001348194" target="_blank" style="font-size:12.727272033691406px">example</a><span style="font-size:12.727272033691406px;color:rgb(34,34,34)"> of regulation tool).</span><br>
</div></div><div style="font-family:arial,sans-serif;font-size:13px"><div class="im"><div style="font-size:12.727272033691406px">When I query Ensembl looking for regulation info, it produces an AJAX error and no graphics are showed.<br>
</div></div><div style="font-size:12.727272033691406px">Below the error message:</div><div style="font-size:12.727272033691406px"><div><br></div><div class="im"><b><font face="courier new, monospace">AJAX error - Runtime Error in component EnsEMBL::Web::Component::Regulation::FeaturesByCellLine [content]"</font></b></div>
<div class="im"><div><font face="courier new, monospace">Function EnsEMBL::Web::Component::Regulation::FeaturesByCellLine fails to execute due to the following error:<br></font></div><div><font face="courier new, monospace"><br>
</font></div><div><font face="courier new, monospace"><span style="white-space:pre-wrap"> </span>-------------------- EXCEPTION --------------------</font></div><div><font face="courier new, monospace"><span style="white-space:pre-wrap"> </span>MSG: Failed to open: </font></div>
<div><font face="courier new, monospace"><span style="white-space:pre-wrap"> </span>... /result_feature/GM12878_DNase1_ENCODE_Uw/result_features.GM12878_DNase1_ENCODE_Uw.130.col</font></div><div><font face="courier new, monospace"><span style="white-space:pre-wrap"> </span>No such file or directory</font></div>
</div></div></div><div class="gmail_extra" style="font-family:arial,sans-serif;font-size:13px"><div style="font-size:12.727272033691406px"><br></div><div style="font-size:12.727272033691406px"><br></div><div style="font-size:12.727272033691406px">
I know the cause of the problem: Ensembl tries to read some files from a directory located in the root of the file system (e.g. <span style="font-family:'courier new',monospace"> /result_feature/GM12878_</span><span style="font-family:'courier new',monospace">DNase1_ENCODE_Uw/result_</span><span style="font-family:'courier new',monospace">features.GM12878_DNase1_</span><span style="font-family:'courier new',monospace">ENCODE_Uw.130.col</span>), however the directory <span style="font-family:'courier new',monospace">/result_feature/</span> doesn't exists and the query crashes.</div>
<div style="font-size:12.727272033691406px"><br></div><div style="font-size:12.727272033691406px">If I move the <span style="font-family:'courier new',monospace">/result_feature/ </span>folder to the root of my file system, then Ensembl works, however I don't want to put there those files, and I want to know how could I change this. I found in the ensembl-dev page a thread talking about this problem (<a href="http://lists.ensembl.org/pipermail/dev/2012-April/007279.html" target="_blank">here</a>) and they suggested to set a variable ENSEMBL_REGULATION_FILE_PATH pointing to the desired folder in the DEFAULT.ini file.</div>
<div class="im"><div style="font-size:12.727272033691406px"><font color="#000000">In my case should look like this:</font></div><div style="font-size:12.727272033691406px"><font color="#000000"><br></font></div><div style="font-size:12.727272033691406px">
<span style="font-family:'courier new',monospace">ENSEMBL_REGULATION_FILE_PATH=/usr/local/ensembl/regulation_files/</span><font color="#000000"><br></font></div><div style="font-size:12.727272033691406px"><br></div>
<div style="font-size:12.727272033691406px">However it doesn't works. Nothing change when using this setting and Ensembl still looking for the files in the previous directory. Any idea?</div><div style="font-size:12.727272033691406px">
<br></div></div><div style="font-size:12.727272033691406px"><span style="font-size:12.727272033691406px">Thank you and best regards,</span><div class=""><div id=":1p8" class="" tabindex="0"><img class="" src="https://mail.google.com/mail/u/0/images/cleardot.gif" style=""></div>
</div><div class=""><br></div></div><div class="im"><br clear="all" style="font-size:12.727272033691406px"><div style="font-size:12.727272033691406px"><font style="color:rgb(102,102,102)"><span style="font-family:tahoma,sans-serif">Rafa Hernández de Diego </span></font><br>
<div><span style="color:rgb(153,153,153)"><br></span></div><div><br></div></div></div></div></div>