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<div class="moz-cite-prefix">Dear Antony,</div>
<div class="moz-cite-prefix"><br>
</div>
<div class="moz-cite-prefix">thank you for your e-mail and for the
interest in the COD! Below I'll answer your questions:<br>
</div>
<div class="moz-cite-prefix"><br>
</div>
<div class="moz-cite-prefix">On 2024-04-12 15:07, Antony Fornes
wrote:<br>
</div>
<blockquote type="cite"
cite="mid:MR1P264MB1825818D703D6AB09E4E0094A2042@MR1P264MB1825.FRAP264.PROD.OUTLOOK.COM">
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<p class="MsoNormal"
style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span
style="mso-fareast-language:FR">Hello,<o:p></o:p></span></p>
<p class="MsoNormal"
style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span
style="mso-fareast-language:FR">We are currently conducting
a study on
</span>Crystallography Open Database (COD) <span
style="mso-fareast-language:FR">
to expand our inventory of available research data
repository solutions. This study, undertaken as part of
Université Côte d'Azur, aims to create a guide to assist our
research community in identifying the most suitable services
for their needs.<o:p></o:p></span></p>
<p class="MsoNormal"
style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span
style="mso-fareast-language:FR">We have a few questions :</span></p>
</div>
</blockquote>
<blockquote type="cite"
cite="mid:MR1P264MB1825818D703D6AB09E4E0094A2042@MR1P264MB1825.FRAP264.PROD.OUTLOOK.COM">
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<p class="MsoNormal"
style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span
style="mso-fareast-language:FR"><o:p></o:p></span></p>
<p class="MsoNormal"
style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span
style="mso-fareast-language:FR">Can the depositor restrict
access to his files? If so, is this restriction limited to
an embargo?</span></p>
</div>
</blockquote>
<p>Yes. The default embargo period is 6 months, with the possibility
to extend it in 6 month additional periods.</p>
<p>During the embargo period, only the formula, compound name and
the cell constants of the crystal displayed publicly in the
database, but not the atomic coordinates and other data.<br>
</p>
<p>Currently, we do not enforce the end of embargo, trusting the
depositors to declare their data published and open. In future
this may (should :) ) change, but in any case we will send
information messages to the depositors and corresponding authors
about the decision to open the data or extend the embargo, and
make sure that all stakeholders have time and opportunity to
react.<br>
</p>
<blockquote type="cite"
cite="mid:MR1P264MB1825818D703D6AB09E4E0094A2042@MR1P264MB1825.FRAP264.PROD.OUTLOOK.COM">
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<p class="MsoNormal"
style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span
style="mso-fareast-language:FR"><o:p></o:p></span></p>
<p class="MsoNormal"
style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span
style="mso-fareast-language:FR">Does the repository support
the upload of large files? If so, is there a limit to the
size or number of files that can be uploaded?</span></p>
</div>
</blockquote>
<p>We can accept large files where the size is limited by the
underlying file system. One of the ways to do it it to use a good
old anonymous FTP server. This upload however is not automatic,
please contact us if you plan to deposit large files (e.g.
original diffraction images). In this way, for example, derived
databases are uploaded to the COD [1].</p>
<p>In case you would like to deposit the raw diffraction images
systematically, we can add links to other repositories (such as
XRDa [2]), provided they have stable, unique, persistent
identifiers resolvable on-line. There are also plans to host raw
diffraction data in Vilnius University, which are under
development.<br>
</p>
<blockquote type="cite"
cite="mid:MR1P264MB1825818D703D6AB09E4E0094A2042@MR1P264MB1825.FRAP264.PROD.OUTLOOK.COM">
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<p class="MsoNormal"
style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span
style="mso-fareast-language:FR"><o:p></o:p></span></p>
<p class="MsoNormal"
style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span
style="mso-fareast-language:FR">Does the repository offer
medium-term (5-10 years) data preservation for distribution
purposes? Furthermore, does it provide long-term archiving
services?</span></p>
</div>
</blockquote>
The aim of the COD is to maintain open access to crystallographic
data for as long as it is needed by the community. Last year we
proudly celebrated 20 years on-line, so yes, <i>de facto</i> we can
and do provide access to the data for more than 2 decades. There are
plans to expand and extend the COD into the future, and we have
contingency plans such as mirrors in other countries (Spain) in case
of emergency. So the answer to both of your questions is yes, with
understanding that here might be <i>force majeure</i> circumstances
such as war that might make carrying out the existing plans
difficult...<br>
<blockquote type="cite"
cite="mid:MR1P264MB1825818D703D6AB09E4E0094A2042@MR1P264MB1825.FRAP264.PROD.OUTLOOK.COM">
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<p class="MsoNormal"
style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span
style="mso-fareast-language:FR"><o:p></o:p></span></p>
<p class="MsoNormal"
style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto"><span
style="mso-fareast-language:FR">Does the repository
automatically generate a citation with the data references ?</span></p>
</div>
</blockquote>
Not yet but we have recommendations of how to do this (they are
planned to be included into the International Table of
Crystallography) [3]. The COD provides all necessary metadata to
create such citations.<br>
<blockquote type="cite"
cite="mid:MR1P264MB1825818D703D6AB09E4E0094A2042@MR1P264MB1825.FRAP264.PROD.OUTLOOK.COM">
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<p class="MsoNormal"
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style="mso-fareast-language:FR"><o:p></o:p></span></p>
<p class="MsoNormal"><span style="mso-fareast-language:FR">Thank
you very much for your attention to our questions.</span></p>
</div>
</blockquote>
HTH,<br>
<p>Sincerely yours,<br>
Saulius</p>
<p>Refs.:</p>
<p>[1] PANalytical (2023) HighScore (Plus) COD database. URL:
<a class="moz-txt-link-freetext" href="http://www.crystallography.net/cod/archives/2023/PANalytical/">http://www.crystallography.net/cod/archives/2023/PANalytical/</a>
[accessed 2024-04-16T14:41+03:00]</p>
<p>[2] Xtal Raw Data Archive Maintainers (2020). Xtal Raw Data
Archive. URL: <a class="moz-txt-link-freetext" href="https://xrda.pdbj.org/">https://xrda.pdbj.org/</a> [accessed:
2023-07-16T23:53+03:00]<br>
</p>
<p>[3] Gražulis, S. (2016) COD data citation. In the presentation
"The Crystallography Open Database" at the OpenCon 2016, Kaunas,
Lithuania (slides 18 & 19). URL:
<a class="moz-txt-link-freetext" href="http://www.crystallography.net/cod/archives/2016/slides/2016-Kaunas-OpenCon2016/slides.pdf">http://www.crystallography.net/cod/archives/2016/slides/2016-Kaunas-OpenCon2016/slides.pdf</a>
[accessed 2024-04-16T14:52+03:00]<br>
</p>
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<p class="MsoNormal"><span style="mso-fareast-language:FR">Best
regards</span><o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal"><b><span
style="font-family:"Verdana",sans-serif">Antony
FORNES<o:p></o:p></span></b></p>
<p class="MsoNormal" style="background:white"><span
style="font-size:10.0pt;font-family:"Verdana",sans-serif;color:black">Chargé
d’Ingénierie documentaire</span><span
style="font-size:10.0pt;font-family:"Verdana",sans-serif"><o:p></o:p></span></p>
<p class="MsoNormal" style="background:white"><span
style="font-size:9.0pt;font-family:"Verdana",sans-serif;color:black">Mission
Services à la recherche</span><span
style="font-size:12.0pt;font-family:"Times New
Roman",serif"><o:p></o:p></span></p>
<p class="MsoNormal" style="background:white"><span
style="font-size:9.0pt;font-family:"Verdana",sans-serif;color:black">Bibliothèques
Université Côte d’Azur
</span><span
style="font-size:12.0pt;font-family:"Times New
Roman",serif"><o:p></o:p></span></p>
<p class="MsoNormal"><span
style="font-size:9.0pt;font-family:"Verdana",sans-serif;color:black">Parc
Valrose, 06101 Nice Cedex 2<o:p></o:p></span></p>
<p class="MsoNormal"><b><i><span
style="font-size:9.0pt;font-family:"Verdana",sans-serif">Tél :</span></i></b><span
style="font-size:9.0pt;font-family:"Verdana",sans-serif">
</span><span
style="font-family:"Verdana",sans-serif">0</span><span
style="font-family:"Verdana",sans-serif">4
89 15 13 08</span><span
style="font-size:9.0pt;font-family:"Verdana",sans-serif"><o:p></o:p></span></p>
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href="https://bu.univ-cotedazur.fr/"
moz-do-not-send="true"><span
style="font-size:9.0pt;line-height:115%;font-family:"Verdana",sans-serif;color:blue">https://bu.univ-cotedazur.fr</span></a><u><span
style="color:blue"><o:p></o:p></span></u></p>
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<pre class="moz-quote-pre" wrap="">_______________________________________________
Cod-bugs mailing list
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<p><br>
</p>
<pre class="moz-signature" cols="72">--
Dr. Saulius Gražulis
Vilnius University Institute of Biotechnology, Saulėtekio al. 7
LT-10257 Vilnius, Lietuva (Lithuania)
fax: (+370-5)-2234367 / phone (office): (+370-5)-2234353
mobile: (+370-684)-49802, (+370-614)-36366
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