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<div class="moz-cite-prefix">Dear Peter,</div>
<div class="moz-cite-prefix"><br>
</div>
<div class="moz-cite-prefix">thank you for your request.<br>
</div>
<div class="moz-cite-prefix"><br>
</div>
<div class="moz-cite-prefix">On 2025-06-20 12:49, Peter Zugenmaier
wrote:<br>
</div>
<blockquote type="cite"
cite="mid:f12d472f63cd4986bed7d9841c593d0b@tu-clausthal.de">
<p>thank you very much for an excellent representation of
introducing personal data into COD-CIF files. I also need to
intoduce a complete CIF file into COD with the same COD number
especially when many additional data are added to the new file.
Can you help me?</p>
</blockquote>
<p>First of all, let me tell you a bit about the COD Persistent
Identifiers (PID) and the COD entry policy. Each COD entry
describes a single instance of a crystal structure solution and
modelling. Once published, a COD ID (PID) is assigned permanently
and uniquely to this structure model. We should never commit a
different structure solution instance (e.g. a re-refinement) of
the structure under the same ID, and should never remove the ID
from the database (even if we withdraw or retract the structure).
Thus, complete replacements of the old CIFs in the COD are very
rare; in fact, during the last 22 years, this hardly ever happened
:).</p>
<p>Adding additional information that was not present in the
original entry is OK, as it is OK to correct small mistakes. As a
rule, this does not need a complete replacement of the CIF
contents – it is safer to just append the additional information
(the new CIF tags) or correct the wrong data values using a text
editor.<br>
</p>
<p>If you however still need to completely replace the content of
your deposited CIF record, you can proceed as follows (actually,
these are he same steps as you would do for small corrections or
additions as well):</p>
<p>- log in into the data management Web page of the COD
(<a class="moz-txt-link-freetext" href="https://www.crystallography.net/cod/manage_depositions.php">https://www.crystallography.net/cod/manage_depositions.php</a>);</p>
<p>- follow the "<a
href="https://www.crystallography.net/cod/my_depositions.php?CODSESSION=r3iha5puaaud9aijmfnbdi1dki">View
your depositions</a>" link (could take a while if you have a lot
of structures deposited);<br>
</p>
<p>- navigate to the structure you would like to replace. The
structure has to be released already. Click on the structure to
get the structure "card" page;<br>
</p>
<p>- Click on the "Update" link;</p>
<p>- After the validator has finished, click on the "Edit" button;</p>
<p>- Scroll down to get into the editor window;</p>
<p>- In the editor window, edit the CIF contents. If you need to
replace it entirely, you can mark the whole text, delete it and/or
paste a new CIF content over it.</p>
<p>- Add a human-readable description of your update;</p>
<p>- Click the "Save and check" button;</p>
<p>- Check the results:<br>
</p>
<p>-- If the structure is OK after the validator checks, click on
the "Update" button. A new revision of your entry will be
registered immediately.</p>
<p>-- If there are problems detected, go back to the editor, fix
them, and "Save and check" again;</p>
<p>In case you get stuck and can not get past the validator, write
me and e-mail and attach the updating CIF, with the indication of
what entry it should replace (please provide the COD ID), and I'll
do this manually for you. Alternatively, I can give you access to
the "COD CIF staging repository", a Subversion repository where
you and other COD contributors can edit a CIF collectively, and
after we get the CIF right we'll transfer it to the COD.</p>
<p>Hope this helps.</p>
<p>Sincerely yours,<br>
Saulius<br>
</p>
<pre class="moz-signature" cols="72">--
Dr. Saulius Gražulis
Vilnius University Institute of Biotechnology, Saulėtekio al. 7
LT-10257 Vilnius, Lietuva (Lithuania)
mobile: (+370-684)-49802, (+370-614)-36366
</pre>
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