<html><head></head><body> <div dir="auto">Dear Daniel,</div><div dir="auto"><br></div><div dir="auto">Thank you very much for the script! I was looking for something like that. I have never heard about Relion’s printtable command. Good to know. </div><div dir="auto"><br></div><div dir="auto">I agree with you regarding Patch CTF correction. </div><div dir="auto"><br></div><div dir="auto">Thank you very much for the help!</div><div dir="auto"><br></div><div dir="auto">Kind regards,</div><div dir="auto">Scott. </div> <div><br></div><div><br></div>On Sat, Jun 28, 2025 at 22:06, Daniel Asarnow <<a class="" href="mailto:On Sat, Jun 28, 2025 at 22:06, Daniel Asarnow <<a href=">dasarnow@gmail.com</a>> wrote:<blockquote type="cite" class="protonmail_quote"> <div dir="ltr">
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Hi Scott,
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You can use the "import micrographs" job to import micrographs into cryoSPARC using an appropriate wildcard or by creating symbolic links in a new directory. For example, in the relion project directory:
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<span style="font-family:monospace">mkdir csimport; cd csimport</span>
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<span style="font-family:monospace">for i in $(relion_star_printtable ../selected_micrographs.star data_micrographs rlnMicrographName); do ln -s ../$i -t .; done</span>
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You will have to run CTF estimation again in cryoSPARC, however fortunately 1) it is cheap and 2) Patch CTF is in my experience superior even to per-particle estimates unless the particles are quite large or there is significant residual beam tilt.
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Best,
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-da
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On Thu, Jun 26, 2025 at 10:08 AM justacuriousone01--- via 3dem <
<a href="mailto:3dem@ncmir.ucsd.edu">3dem@ncmir.ucsd.edu</a>> wrote:
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<p style="font-style:normal;font-weight:400;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;text-decoration:none">Dear 3DEM community,</p>
<p style="font-style:normal;font-weight:400;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;text-decoration:none">I’m looking for a way to export a subset of micrographs—already motion-corrected and CTF-estimated in RELION—for further processing in CryoSPARC, starting from Patch Motion Correction.</p>
<p style="font-style:normal;font-weight:400;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;text-decoration:none">Is there an easy or recommended method to transfer selected micrographs between the two softwares? If anyone knows of a script or best practice for this workflow, I’d really appreciate your help.</p>
<p style="font-style:normal;font-weight:400;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;text-decoration:none">Kind regards,<br>Scott</p>
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