<html><head><meta http-equiv="content-type" content="text/html; charset=utf-8"></head><body style="overflow-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;">Hi Sébastien,<div><br></div><div>Thanks for raising this - there is an issue with Texel FTP files, and we aim to resolve this in our upcoming releases. We’ve also added a known bug for this on <a href="https://www.ensembl.info/known-bugs/ensembl-113/">e!113 known</a> bugs. </div><div><br></div><div>The workaround is to use Texel files from the e!112 archive <a href="http://may2024.archive.ensembl.org/Ovis_aries/Info/Index">http://may2024.archive.ensembl.org/Ovis_aries/Info/Index</a></div><div><br></div><div>Cheers!</div><div>Jorge </div><div><br id="lineBreakAtBeginningOfMessage"><div>
Dr Jorge Batista da Rocha<br>Ensembl Outreach Project Leader<br>European Bioinformatics Institute (EMBL-EBI)
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<div><br><blockquote type="cite"><div>On 6 Feb 2025, at 17:01, Jorge Batista da Rocha <jrocha@ebi.ac.uk> wrote:</div><br class="Apple-interchange-newline"><div><meta http-equiv="content-type" content="text/html; charset=utf-8"><div style="overflow-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;">Hi Sébastien, <div><br></div><div><div style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 13px; line-height: normal; font-family: "Helvetica Neue"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">Regarding the sheep reference - the reference sheep in Ensembl is Rambouillet, but to note, we are displaying data for ARS-UI_Ramb_v2.0, the previous version as compared to the refseq reference.</div><div style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 13px; line-height: normal; font-family: "Helvetica Neue"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;"><br></div><div style="display: block;"><div style="-webkit-user-select: all; -webkit-user-drag: element; display: inline-block;" class="apple-rich-link" draggable="true" role="link" data-url="https://www.ensembl.org/Ovis_aries_rambouillet/Info/Index"><a style="border-radius:10px;font-family:-apple-system, Helvetica, Arial, sans-serif;display:block;-webkit-user-select:none;width:300px;user-select:none;-webkit-user-modify:read-only;user-modify:read-only;overflow:hidden;text-decoration:none;" class="lp-rich-link" rel="nofollow" href="https://www.ensembl.org/Ovis_aries_rambouillet/Info/Index" dir="ltr" role="button" draggable="false" width="300"><table style="table-layout:fixed;border-collapse:collapse;width:300px;background-color:#E5E6E9;font-family:-apple-system, Helvetica, Arial, sans-serif;" class="lp-rich-link-emailBaseTable" cellpadding="0" cellspacing="0" border="0" width="300"><tbody><tr><td vertical-align="center"><table bgcolor="#E5E6E9" cellpadding="0" cellspacing="0" width="300" style="font-family:-apple-system, Helvetica, Arial, sans-serif;table-layout:fixed;background-color:rgba(229, 230, 233, 1);" class="lp-rich-link-captionBar"><tbody><tr><td style="padding:8px 0px 8px 0px;" class="lp-rich-link-captionBar-textStackItem"><div style="max-width:100%;margin:0px 16px 0px 16px;overflow:hidden;" class="lp-rich-link-captionBar-textStack"><div style="word-wrap:break-word;font-weight:500;font-size:12px;overflow:hidden;text-overflow:ellipsis;text-align:left;" class="lp-rich-link-captionBar-textStack-topCaption-leading"><a rel="nofollow" href="https://www.ensembl.org/Ovis_aries_rambouillet/Info/Index" style="text-decoration: none" draggable="false"><font color="#272727" style="">Ovis_aries_rambouillet - Ensembl genome browser 113</font></a></div><div style="word-wrap:break-word;font-weight:400;font-size:11px;overflow:hidden;text-overflow:ellipsis;text-align:left;" class="lp-rich-link-captionBar-textStack-bottomCaption-leading"><a rel="nofollow" href="https://www.ensembl.org/Ovis_aries_rambouillet/Info/Index" style="text-decoration: none" draggable="false"><font color="#808080" style="">ensembl.org</font></a></div></div></td><td style="padding:6px 12px 6px 0px;" class="lp-rich-link-captionBar-rightIconItem" width="36"><a rel="nofollow" href="https://www.ensembl.org/Ovis_aries_rambouillet/Info/Index" draggable="false"><span id="cid:FE4CF30B-2A96-48F2-9E9B-D3A833885254"><apple-touch-icon.png></span></a></td></tr></tbody></table></td></tr></tbody></table></a></div></div><p style="margin: 0px; font-stretch: normal; line-height: normal; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;"><font face="Helvetica Neue" size="2"></font></p><div style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 13px; line-height: normal; font-family: "Helvetica Neue"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;"><br></div><div style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 13px; line-height: normal; font-family: "Helvetica Neue"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">We’re still looking into the sheep FTP files, hope to get back to you soon. </div><div style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 13px; line-height: normal; font-family: "Helvetica Neue"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;"><br></div><div style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 13px; line-height: normal; font-family: "Helvetica Neue"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">Cheers! </div><div style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 13px; line-height: normal; font-family: "Helvetica Neue"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">Jorge</div><div><br></div><div>
Dr Jorge Batista da Rocha<br>Ensembl Outreach Project Leader<br>European Bioinformatics Institute (EMBL-EBI)
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<div><br><blockquote type="cite"><div>On 6 Feb 2025, at 13:23, Sebastien Moretti <sebastien.moretti@unil.ch> wrote:</div><br class="Apple-interchange-newline"><div><div>Thanks, waiting for your answer about the FTP.<br><br>Does it mean the reference breed is Texel, and not Rambouillet, at Ensembl?<br>The reference at RefSeq is now Rambouillet ARS-UI_Ramb_v3.0/GCF_016772045.2<br>https://www.ncbi.nlm.nih.gov/datasets/genome/?taxon=9940<br><br>Best<br>Sébastien<br><br>On 06.02.2025 10:30, Jorge Batista da Rocha via RT wrote:<br><blockquote type="cite"><URL: http://helpdesk.ebi.ac.uk/Ticket/Display.html?id=791073 ><br>Dear Sébastien,<br>Hope you are well! There have been some issues with the 113 release related<br>files due to sheep texel getting switched up with ramboulliet when pipelines<br>called for sheep - ovis aries.<br>We know this affects VEP for sheep, we have a known bug for this- https://<br>www.ensembl.info/known-bugs/ensembl-113/<br>We are exploring the data on FTP and will get back to you, but until then, the<br>workaround will be to use the files from the 112 release. https://<br>ftp.ensembl.org/pub/release-112/json/ovis_aries/<br>Thanks and best regards<br>Jorge<br><blockquote type="cite">Sébastien<br></blockquote></blockquote><br>--<br>Sébastien Moretti<br>Staff Scientist<br>Department of Ecology and Evolution,<br>Biophore, University of Lausanne,<br>CH-1015 Lausanne, Switzerland<br>Tel.: +41 (21) 692 4221<br>https://bioinfo.unil.ch/ https://www.bgee.org/ https://selectome.org/<br><br>_______________________________________________<br>Dev mailing list Dev@ensembl.org<br>Posting guidelines and subscribe/unsubscribe info: https://lists.ensembl.org/mailman/listinfo/dev_ensembl.org<br>Ensembl Blog: http://www.ensembl.info/<br></div></div></blockquote></div><br></div></div></div></blockquote></div><br></div></body></html>