<div dir="ltr">Hi All<div><br></div><div>1.</div><div>EnsembkGenomes data importing has an error.</div><div><br></div><div>analysis_ctrl_rule.txt</div><div>analysis_data.txt</div><div>analysis_stats.txt</div><div>analysis_stats_monitor.txt</div>
<div>dataflow_rule.txt</div><div><br></div><div>above 5 text files exist in ensembl_compara_pan_homology_17_70 folder, but ensembl_compara_pan_homology_17_70.sql doesn't contain the related table creating commands.</div>
<div><br></div><div>either these files are redundent or the sql is wrong, Please check it.</div><div><br></div><div>2.</div><div>Genomic alignments (image) error on our local mirror.</div><div><br></div><div>On gene page, some alignments set work vrey well, but some of them doesn't, such as alignment: Caenorhabditis brenneri-lastz. </div>
<div><br></div><div>The error message is:</div><div><br></div><div><div>AJAX error - Runtime Error in component "EnsEMBL::Web::Component::Gene::Compara_AlignSliceBottom [content]"</div><div><br></div><div>Function EnsEMBL::Web::Component::Gene::Compara_AlignSliceBottom fails to execute due to the following error:</div>
<div><br></div><div><br></div><div><span class="" style="white-space:pre">  </span>-------------------- EXCEPTION --------------------</div><div><span class="" style="white-space:pre">        </span>MSG: [] is not a Bio::EnsEMBL::Compara::MethodLinkSpeciesSet</div>
<div><span class="" style="white-space:pre">    </span>STACK Bio::EnsEMBL::Compara::DBSQL::AlignSliceAdaptor::fetch_by_Slice_MethodLinkSpeciesSet</div><div><span class="" style="white-space:pre"> </span>... /usr/local/ensembl_metazoa/ensembl-compara/modules/Bio/EnsEMBL/Compara/DBSQL/AlignSliceAdaptor.pm:119</div>
<div><span class="" style="white-space:pre">    </span>STACK EnsEMBL::Web::Component::Compara_Alignments::get_alignments</div><div><span class="" style="white-space:pre">  </span>... /usr/local/ensembl_metazoa/modules/EnsEMBL/Web/Component/Compara_Alignments.pm:198</div>
<div><span class="" style="white-space:pre">    </span>STACK EnsEMBL::Web::Component::Compara_Alignments::get_slices</div><div><span class="" style="white-space:pre">      </span>... /usr/local/ensembl_metazoa/eg-plugins/common/modules/EnsEMBL/Web/Component/Compara_Alignments.pm:329</div>
<div><span class="" style="white-space:pre">    </span>STACK EnsEMBL::Web::Component::Gene::Compara_AlignSliceBottom::content</div><div><span class="" style="white-space:pre">     </span>... /usr/local/ensembl_metazoa/eg-plugins/common/modules/EnsEMBL/Web/Component/Gene/Compara_AlignSliceBottom.pm</div>
<div><span class="" style="white-space:pre">    </span>... :55</div><div><span class="" style="white-space:pre">    </span>STACK EnsEMBL::Web::Component::get_content /usr/local/ensembl_metazoa/modules/EnsEMBL/Web/Component.pm:139</div>
<div><span class="" style="white-space:pre">    </span>STACK (eval) /usr/local/ensembl_metazoa/modules/EnsEMBL/Web/Document/Panel.pm:400</div><div><span class="" style="white-space:pre">  </span>STACK EnsEMBL::Web::Document::Panel::component_content</div>
<div><span class="" style="white-space:pre">    </span>... /usr/local/ensembl_metazoa/modules/EnsEMBL/Web/Document/Panel.pm:397</div><div><span class="" style="white-space:pre">   </span>STACK EnsEMBL::Web::Document::Panel::Ajax::content</div>
<div><span class="" style="white-space:pre">    </span>... /usr/local/ensembl_metazoa/modules/EnsEMBL/Web/Document/Panel/Ajax.pm:9</div><div><span class="" style="white-space:pre">        </span>STACK EnsEMBL::Web::Document::Element::Content::content</div>
<div><span class="" style="white-space:pre">    </span>... /usr/local/ensembl_metazoa/modules/EnsEMBL/Web/Document/Element/Content.pm:127</div><div><span class="" style="white-space:pre"> </span>STACK EnsEMBL::Web::Controller::render_page /usr/local/ensembl_metazoa/modules/EnsEMBL/Web/Controller.pm:218</div>
<div><span class="" style="white-space:pre">    </span>STACK EnsEMBL::Web::Controller::Component::init</div><div><span class="" style="white-space:pre">    </span>... /usr/local/ensembl_metazoa/modules/EnsEMBL/Web/Controller/Component.pm:45</div>
<div><span class="" style="white-space:pre">    </span>STACK EnsEMBL::Web::Controller::new /usr/local/ensembl_metazoa/modules/EnsEMBL/Web/Controller.pm:90</div><div><span class="" style="white-space:pre">        </span>STACK EnsEMBL::Web::Apache::SpeciesHandler::handler_species</div>
<div><span class="" style="white-space:pre">    </span>... /usr/local/ensembl_metazoa/modules/EnsEMBL/Web/Apache/SpeciesHandler.pm:91</div><div><span class="" style="white-space:pre">     </span>STACK EnsEMBL::Web::Apache::Handlers::handler</div>
<div><span class="" style="white-space:pre">    </span>... /usr/local/ensembl_metazoa/modules/EnsEMBL/Web/Apache/Handlers.pm:369</div><div><span class="" style="white-space:pre">  </span>STACK (eval) -e:0</div><div><span class="" style="white-space:pre">  </span>STACK toplevel -e:0</div>
<div><span class="" style="white-space:pre">    </span>Date (localtime)    = Sun Feb 17 13:54:05 2013</div><div><span class="" style="white-space:pre">   </span>Ensembl API version = 70</div></div><div><br></div><div><div style>
How to fix it?</div><div style><br></div><div style>Thanks</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:£¨+86£©512-82782588</span></font></div>

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