<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;">Dear Michael, <div><br></div><div>Great question - yes, we will be offering a JSON file detailing the FTP structure and a readme for navigation in time. </div><div><br></div><div>As the structure of that FTP is still in active development, there are likely to be changes which will need to be incorporated into those files. </div><div><br></div><div>As a current workaround, all the data on the beta site now (MVP) matches Rapid Release. </div><div><br></div><div>Are there any key use cases you have in mind for the JSON files? Could be helpful for our teams as they work on it.</div><div><br></div><div>Best regards</div><div><br></div><div>Jorge </div><div><br></div><div> </div><div><br></div><div><div>
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<div><br><blockquote type="cite"><div>On 25 Nov 2024, at 18:53, Michael Paulini <mh6@sanger.ac.uk> wrote:</div><br class="Apple-interchange-newline"><div><meta charset="UTF-8"><span style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;">Excellent. </span><div style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">I did a quick crawl through the directories (as there is no metadata.json file anymore), and all of the ones from the old rapid seem to be there :-)<div>Are there plans to add something like the rapid metadata file to the FTP, as crawling the site, just to get the available GCA numbers, is a bit suboptimal.</div><div><br></div><div>M<br id="lineBreakAtBeginningOfMessage"><div><br><blockquote type="cite"><div>On 15 Nov 2024, at 15:10, Jorge Batista da Rocha <<a href="mailto:jrocha@ebi.ac.uk">jrocha@ebi.ac.uk</a>> wrote:</div><br class="Apple-interchange-newline"><div><div style="overflow-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;">Dear Michael, <div><br></div><div>All credit to the Ensembl team! Thank you!</div><div><br></div><div>Yes there is an FTP site for data available in Ensembl beta - <span class="clickylink"><a target="_blank" href="https://urldefense.proofpoint.com/v2/url?u=https-3A__ftp.ebi.ac.uk_pub_ensemblorganisms_&d=DwMFaQ&c=D7ByGjS34AllFgecYw0iC6Zq7qlm8uclZFI0SqQnqBo&r=dlKDUfCS4BkNAxVmG7MDyU6N7Vlg2I7v-PtmkCotvMo&m=e1DsVdc5aifa-jXyZLuRRcX0tfuDxNfEIBQR2AyaXqjTe-3QNzvwGraE-nh7y49Y&s=au--nkmPx8HP9e_rJ9J6id7BJewQ9Xc0PeAtADZjnUc&e=">https://ftp.ebi.ac.uk/pub/ensemblorganisms/ [ftp.ebi.ac.uk]</a></span> </div><div><p>Specific FTP links for species on beta are available in the right hand panel of each species home page.</p><p>Please note - the beta FTP file structure is not the same as in Rapid Release <a href="https://urldefense.proofpoint.com/v2/url?u=https-3A__ftp.ensembl.org_pub_rapid-2Drelease_&d=DwMFaQ&c=D7ByGjS34AllFgecYw0iC6Zq7qlm8uclZFI0SqQnqBo&r=dlKDUfCS4BkNAxVmG7MDyU6N7Vlg2I7v-PtmkCotvMo&m=e1DsVdc5aifa-jXyZLuRRcX0tfuDxNfEIBQR2AyaXqjTe-3QNzvwGraE-nh7y49Y&s=Z8DqMasKj0fCztQrcp2ryXgcq1BndJJltSPbYXEvxLQ&e=">https://ftp.ensembl.org/pub/rapid-release/ [ftp.ensembl.org]</a> </p><p>We will post blogs and messages if there are any modifications to the FTP file structure for beta. </p><p>Thanks and best regards</p><p>Jorge</p><div></div><div><br><blockquote type="cite"><div>On 15 Nov 2024, at 10:02, Michael Paulini <mh6@sanger.ac.uk> wrote:</div><br class="Apple-interchange-newline"><div><div style="overflow-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;">Hi Jorge,<div><br></div><div>Great work, the new site looks very smooth.</div><div><br></div><div>Will there be an accompanying FTP location for the collected data, as currently it is split between rapid and regular (and doesn’t include the new data from beta).</div><div><br></div><div>Best regards,</div><div><br></div><div>Michael<br id="lineBreakAtBeginningOfMessage"><div><br><blockquote type="cite"><div>On 14 Nov 2024, at 17:28, Jorge Batista da Rocha <jrocha@ebi.ac.uk> wrote:</div><br class="Apple-interchange-newline"><div><div style="overflow-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;">Hi,<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;"><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;">All Rapid Release data, including Release 65, has been uploaded into the new Ensembl Beta site. New genome data will only be released onto the<span class="Apple-converted-space"> </span><a href="https://urldefense.proofpoint.com/v2/url?u=https-3A__beta.ensembl.org_&d=DwMFAg&c=D7ByGjS34AllFgecYw0iC6Zq7qlm8uclZFI0SqQnqBo&r=dlKDUfCS4BkNAxVmG7MDyU6N7Vlg2I7v-PtmkCotvMo&m=F115NWboBWeYBqUUNr3CxqoDX2knSsrtdPKHnD0Z8GF0ly-n_O1apyuDfXYJdVpd&s=1541LcB6k9AjCn9i-t1YIIWz7ejIWEl9yEn1aoxq4i8&e=">Ensembl Beta site [beta.ensembl.org]</a>.</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; min-height: 15px;"><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;">The Ensembl Rapid Release website will remain active for the foreseeable future, however, the data and species set will no longer be updated. If you feel that this change will have a significant impact on your analyses, please let us know by emailing the<span class="Apple-converted-space"> </span><a href="mailto:helpdesk@ensembl.org">Ensembl Helpdesk</a>.</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; min-height: 15px;"><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;">The up-to-date versions of all of these data* will be accessible from the new Beta Ensembl site. However, we will continue to provide access to the data that was frozen on<span class="Apple-converted-space"> </span><a href="https://urldefense.proofpoint.com/v2/url?u=https-3A__rapid.ensembl.org_&d=DwMFAg&c=D7ByGjS34AllFgecYw0iC6Zq7qlm8uclZFI0SqQnqBo&r=dlKDUfCS4BkNAxVmG7MDyU6N7Vlg2I7v-PtmkCotvMo&m=F115NWboBWeYBqUUNr3CxqoDX2knSsrtdPKHnD0Z8GF0ly-n_O1apyuDfXYJdVpd&s=OUSY9bdGeG3OwTLN9cjZsVvsScUHQFPJCOIwEDfye8o&e=">Ensembl Rapid Release genome browser [rapid.ensembl.org]</a><span class="Apple-converted-space"> </span>and<span class="Apple-converted-space"> </span><a href="https://urldefense.proofpoint.com/v2/url?u=https-3A__ftp.ensembl.org_pub_rapid-2Drelease_&d=DwMFAg&c=D7ByGjS34AllFgecYw0iC6Zq7qlm8uclZFI0SqQnqBo&r=dlKDUfCS4BkNAxVmG7MDyU6N7Vlg2I7v-PtmkCotvMo&m=F115NWboBWeYBqUUNr3CxqoDX2knSsrtdPKHnD0Z8GF0ly-n_O1apyuDfXYJdVpd&s=AWmvK1D4HdBoFq1Nm2untVEY8hZRaRXx6e0f5cnOaIA&e=">FTP site [ftp.ensembl.org]</a>. </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; min-height: 15px;"><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;">*Read more on our<span class="Apple-converted-space"> </span><a href="https://urldefense.proofpoint.com/v2/url?u=https-3A__www.ensembl.info_2024_11_14_we-2Dwill-2Dbe-2Dfreezing-2Densembl-2Drapid-2Drelease_&d=DwMFAg&c=D7ByGjS34AllFgecYw0iC6Zq7qlm8uclZFI0SqQnqBo&r=dlKDUfCS4BkNAxVmG7MDyU6N7Vlg2I7v-PtmkCotvMo&m=F115NWboBWeYBqUUNr3CxqoDX2knSsrtdPKHnD0Z8GF0ly-n_O1apyuDfXYJdVpd&s=qUMk0fCQdWgty_f1PJ5l1BiF3VBCNBxccXjqkJq3N38&e=">blog post here [ensembl.info]</a></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; min-height: 15px;"><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;">All the best (on behalf of the Ensembl team)</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>Dev mailing list Dev@ensembl.org<br>Posting guidelines and subscribe/unsubscribe info: https://urldefense.proofpoint.com/v2/url?u=https-3A__lists.ensembl.org_mailman_listinfo_dev-5Fensembl.org&d=DwICAg&c=D7ByGjS34AllFgecYw0iC6Zq7qlm8uclZFI0SqQnqBo&r=dlKDUfCS4BkNAxVmG7MDyU6N7Vlg2I7v-PtmkCotvMo&m=F115NWboBWeYBqUUNr3CxqoDX2knSsrtdPKHnD0Z8GF0ly-n_O1apyuDfXYJdVpd&s=nH1-KaWnra3WQBN2KGrVR032Thl6cGsazk7a2wRxNSE&e=<span class="Apple-converted-space"> </span><br>Ensembl Blog: https://urldefense.proofpoint.com/v2/url?u=http-3A__www.ensembl.info_&d=DwICAg&c=D7ByGjS34AllFgecYw0iC6Zq7qlm8uclZFI0SqQnqBo&r=dlKDUfCS4BkNAxVmG7MDyU6N7Vlg2I7v-PtmkCotvMo&m=F115NWboBWeYBqUUNr3CxqoDX2knSsrtdPKHnD0Z8GF0ly-n_O1apyuDfXYJdVpd&s=6QqGZSxRDf7GAuo9kToWlEvqIp71Sm7tu29QmocSsvY&e=<br></div></blockquote></div><br></div></div>_______________________________________________<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></blockquote></div><br></div></div>_______________________________________________<br>Dev mailing list <a href="mailto:Dev@ensembl.org">Dev@ensembl.org</a><br>Posting guidelines and subscribe/unsubscribe info:<span class="Apple-converted-space"> </span><a href="https://urldefense.proofpoint.com/v2/url?u=https-3A__lists.ensembl.org_mailman_listinfo_dev-5Fensembl.org&d=DwICAg&c=D7ByGjS34AllFgecYw0iC6Zq7qlm8uclZFI0SqQnqBo&r=dlKDUfCS4BkNAxVmG7MDyU6N7Vlg2I7v-PtmkCotvMo&m=e1DsVdc5aifa-jXyZLuRRcX0tfuDxNfEIBQR2AyaXqjTe-3QNzvwGraE-nh7y49Y&s=-Tj86DMKMIbXo_4LsMLqiWn8A6P1HXcNGjrh1E1UUnU&e=">https://urldefense.proofpoint.com/v2/url?u=https-3A__lists.ensembl.org_mailman_listinfo_dev-5Fensembl.org&d=DwICAg&c=D7ByGjS34AllFgecYw0iC6Zq7qlm8uclZFI0SqQnqBo&r=dlKDUfCS4BkNAxVmG7MDyU6N7Vlg2I7v-PtmkCotvMo&m=e1DsVdc5aifa-jXyZLuRRcX0tfuDxNfEIBQR2AyaXqjTe-3QNzvwGraE-nh7y49Y&s=-Tj86DMKMIbXo_4LsMLqiWn8A6P1HXcNGjrh1E1UUnU&e=</a><span class="Apple-converted-space"> </span><br>Ensembl Blog:<span class="Apple-converted-space"> </span><a href="https://urldefense.proofpoint.com/v2/url?u=http-3A__www.ensembl.info_&d=DwICAg&c=D7ByGjS34AllFgecYw0iC6Zq7qlm8uclZFI0SqQnqBo&r=dlKDUfCS4BkNAxVmG7MDyU6N7Vlg2I7v-PtmkCotvMo&m=e1DsVdc5aifa-jXyZLuRRcX0tfuDxNfEIBQR2AyaXqjTe-3QNzvwGraE-nh7y49Y&s=Ydzwk6Tk0U9RJvKu9SGQ3hGGC8J3pZY6GJLr0NSz_KE&e=">https://urldefense.proofpoint.com/v2/url?u=http-3A__www.ensembl.info_&d=DwICAg&c=D7ByGjS34AllFgecYw0iC6Zq7qlm8uclZFI0SqQnqBo&r=dlKDUfCS4BkNAxVmG7MDyU6N7Vlg2I7v-PtmkCotvMo&m=e1DsVdc5aifa-jXyZLuRRcX0tfuDxNfEIBQR2AyaXqjTe-3QNzvwGraE-nh7y49Y&s=Ydzwk6Tk0U9RJvKu9SGQ3hGGC8J3pZY6GJLr0NSz_KE&e=</a><br></div></blockquote></div><br></div></div><span style="caret-color: rgb(0, 0, 0); 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