<html><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">Hi<div><br></div><div>The error here details access to the flat files which support the signal tracks in the regulation displays. I suspect you have not set the following variable in your DEFAULTS.ini:</div><div><br></div><div>ENSEMBL_REGULATION_FILE_PATH</div><div><br></div><div>In here you should have the collection or 'col' files/dirs defined in the dbfile_registry table, which are available via the ftp site:</div><div><br></div><div><a href="ftp://ftp.ensembl.org/pub/release-66/data_files/">ftp://ftp.ensembl.org/pub/release-66/data_files/</a></div><div><br></div><div>Just the human and mouse files are required for the regulation displays, the chimp files support an rnaseq view.</div><div><br></div><div>Hope this help</div><div><br></div><div>Nath</div><div><br></div><div><br></div><div><br><div><div>On 31 Mar 2012, at 13:05, ¸ wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite">Hi All<div><br></div><div>My Ensembl mirror has a error on the regulation feature page, the error message is:</div><div><br></div><div><div>AJAX error - Runtime Error in component "EnsEMBL::Web::Component::Regulation::FeaturesByCellLine [content]"</div> <div><br></div><div>Function EnsEMBL::Web::Component::Regulation::FeaturesByCellLine fails to execute due to the following error:</div><div><br></div><div><span class="Apple-tab-span" style="white-space:pre"> </span>-------------------- EXCEPTION --------------------</div> <div><span class="Apple-tab-span" style="white-space:pre"> </span>MSG: Failed to open:   </div><div><span class="Apple-tab-span" style="white-space:pre">    </span>... /homo_sapiens_funcgen_66_37//result_feature/GM12878_DNase1_ENCODE_Uw/result_features.GM12878_DNase1_ENCODE_</div> <div><span class="Apple-tab-span" style="white-space:pre">     </span>... Uw.65.col</div><div><span class="Apple-tab-span" style="white-space:pre">        </span>No such file or directory</div><div><br></div><div><span class="Apple-tab-span" style="white-space:pre">   </span>STACK Bio::EnsEMBL::DBFile::FileAdaptor::open_file</div> <div><span class="Apple-tab-span" style="white-space:pre">  </span>... /usr/local/Ensembl/ensembl/modules/Bio/EnsEMBL/DBFile/FileAdaptor.pm:146</div><div><span class="Apple-tab-span" style="white-space:pre"> </span>STACK Bio::EnsEMBL::DBFile::FileAdaptor::get_filehandle</div> <div><span class="Apple-tab-span" style="white-space:pre">     </span>... /usr/local/Ensembl/ensembl/modules/Bio/EnsEMBL/DBFile/FileAdaptor.pm:80</div><div><span class="Apple-tab-span" style="white-space:pre">  </span>STACK Bio::EnsEMBL::DBFile::CollectionAdaptor::read_collection_blob</div> <div><span class="Apple-tab-span" style="white-space:pre"> </span>... /usr/local/Ensembl/ensembl/modules/Bio/EnsEMBL/DBFile/CollectionAdaptor.pm:188</div><div><span class="Apple-tab-span" style="white-space:pre">   </span>STACK Bio::EnsEMBL::Funcgen::DBSQL::ResultFeatureAdaptor::_fetch_from_file_by_Slice_ResultSet</div> <div><span class="Apple-tab-span" style="white-space:pre">       </span>... /usr/local/Ensembl/ensembl-functgenomics/modules/Bio/EnsEMBL/Funcgen/DBSQL/ResultFeatureAdaptor.pm:800</div><div><span class="Apple-tab-span" style="white-space:pre">   </span>STACK Bio::EnsEMBL::Funcgen::DBSQL::ResultFeatureAdaptor::fetch_all_by_Slice_ResultSets</div> <div><span class="Apple-tab-span" style="white-space:pre">     </span>... /usr/local/Ensembl/ensembl-functgenomics/modules/Bio/EnsEMBL/Funcgen/DBSQL/ResultFeatureAdaptor.pm:743</div><div><span class="Apple-tab-span" style="white-space:pre">   </span>STACK EnsEMBL::Web::Object::Slice::get_data /usr/local/Ensembl/modules/EnsEMBL/Web/Object/Slice.pm:320</div> <div><span class="Apple-tab-span" style="white-space:pre">      </span>STACK EnsEMBL::Web::Object::Slice::get_cell_line_data</div><div><span class="Apple-tab-span" style="white-space:pre">        </span>... /usr/local/Ensembl/modules/EnsEMBL/Web/Object/Slice.pm:221</div> <div><span class="Apple-tab-span" style="white-space:pre">      </span>STACK EnsEMBL::Web::Component::Regulation::FeaturesByCellLine::content</div><div><span class="Apple-tab-span" style="white-space:pre">       </span>... /usr/local/Ensembl/modules/EnsEMBL/Web/Component/Regulation/FeaturesByCellLine.pm:49</div> <div><span class="Apple-tab-span" style="white-space:pre">    </span>STACK EnsEMBL::Web::Component::get_content /usr/local/Ensembl/modules/EnsEMBL/Web/Component.pm:137</div><div><span class="Apple-tab-span" style="white-space:pre">   </span>STACK (eval) /usr/local/Ensembl/modules/EnsEMBL/Web/Document/Panel.pm:415</div> <div><span class="Apple-tab-span" style="white-space:pre">   </span>STACK EnsEMBL::Web::Document::Panel::component_content</div><div><span class="Apple-tab-span" style="white-space:pre">       </span>... /usr/local/Ensembl/modules/EnsEMBL/Web/Document/Panel.pm:412</div> <div><span class="Apple-tab-span" style="white-space:pre">    </span>STACK EnsEMBL::Web::Document::Panel::Ajax::content</div><div><span class="Apple-tab-span" style="white-space:pre">   </span>... /usr/local/Ensembl/modules/EnsEMBL/Web/Document/Panel/Ajax.pm:9</div> <div><span class="Apple-tab-span" style="white-space:pre"> </span>STACK EnsEMBL::Web::Document::Element::Content::content</div><div><span class="Apple-tab-span" style="white-space:pre">      </span>... /usr/local/Ensembl/modules/EnsEMBL/Web/Document/Element/Content.pm:127</div> <div><span class="Apple-tab-span" style="white-space:pre">  </span>STACK EnsEMBL::Web::Controller::render_page /usr/local/Ensembl/modules/EnsEMBL/Web/Controller.pm:220</div><div><span class="Apple-tab-span" style="white-space:pre"> </span>STACK EnsEMBL::Web::Controller::Component::init</div> <div><span class="Apple-tab-span" style="white-space:pre">     </span>... /usr/local/Ensembl/modules/EnsEMBL/Web/Controller/Component.pm:47</div><div><span class="Apple-tab-span" style="white-space:pre">        </span>STACK EnsEMBL::Web::Controller::new /usr/local/Ensembl/modules/EnsEMBL/Web/Controller.pm:91</div> <div><span class="Apple-tab-span" style="white-space:pre"> </span>STACK EnsEMBL::Web::Apache::SpeciesHandler::handler_species</div><div><span class="Apple-tab-span" style="white-space:pre">  </span>... /usr/local/Ensembl/modules/EnsEMBL/Web/Apache/SpeciesHandler.pm:91</div> <div><span class="Apple-tab-span" style="white-space:pre">      </span>STACK EnsEMBL::Web::Apache::Handlers::handler /usr/local/Ensembl/modules/EnsEMBL/Web/Apache/Handlers.pm:401</div><div><span class="Apple-tab-span" style="white-space:pre">  </span>STACK (eval) -e:0</div> <div><span class="Apple-tab-span" style="white-space:pre">   </span>STACK toplevel -e:0</div><div><span class="Apple-tab-span" style="white-space:pre">  </span>Ensembl API version = 66</div><div><br></div><div>How to fix it ?</div> <div><br></div><div>Thanks million</div><div><br></div>-- <br><div><font face="verdana, sans-serif" size="1">Gang Chen</font></div><div><font face="verdana, sans-serif" size="1">TILSI</font></div><div><font face="verdana, sans-serif" size="1"><span style="background-color:rgb(255,255,255)">Taicang Institute For Life Science Information</span><br style="background-color:rgb(255,255,255)"> <span style="background-color:rgb(255,255,255)">Address: A2/162, Renmin South Road, Taicang, 215400, Jiangsu Province, P.R.China</span><br style="background-color:rgb(255,255,255)"><span style="background-color:rgb(255,255,255)">Phone:+86512-82782588</span></font></div> <br> </div> _______________________________________________<br>Dev mailing list    <a href="mailto:Dev@ensembl.org">Dev@ensembl.org</a><br>List admin (including subscribe/unsubscribe): <a href="http://lists.ensembl.org/mailman/listinfo/dev">http://lists.ensembl.org/mailman/listinfo/dev</a><br>Ensembl Blog: <a href="http://www.ensembl.info/">http://www.ensembl.info/</a><br></blockquote></div><br></div></body></html>