<html><head><meta http-equiv="content-type" content="text/html; charset=us-ascii"></head><body style="overflow-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;">Hi David,<div><br></div><div> As Elaine pointed out Chimera export as STL ignores clipping -- the whole map surface will be written out. Clipping is just a graphical operation that blocks rendering pixels if they are outside the clip planes.</div><div><br></div><div> To export a subset of a map the way to do it is to limit the region of the map displayed. Here is an example of how to do that in ChimeraX. Similar commands work in Chimera, but Chimera has been superseded by ChimeraX so I give you the ChimeraX example</div><div><br></div><div><span class="Apple-tab-span" style="white-space:pre"> </span>open 1080 from emdb</div><div><span class="Apple-tab-span" style="white-space:pre"> </span>volume #1 region 0,0,0,100,100,50</div><div><span class="Apple-tab-span" style="white-space:pre"> </span>save cut_map.stl</div><div><br></div><div>The original map is 100 by 100 by 100 grid points and in this example I show only planes 0 to 50 in z.</div><div><br></div><div> If you want to slice the map with a plane that is not aligned with the x,y,z map axes then you need to first resample the map on a rotated grid so that you can slice perpendicular to z. You can do that with the volume subregion selection capability in Chimera or the "volume resample" command in ChimeraX.</div><div><br></div><div><span class="Apple-tab-span" style="white-space:pre"> </span>Tom</div><div><br></div><div><br></div><div><span class="Apple-tab-span" style="white-space:pre"> </span></div><div><br></div><div><br><div><br><blockquote type="cite"><div>On Dec 22, 2022, at 12:35 PM, Haselbach,David via Chimera-users <chimera-users@cgl.ucsf.edu> wrote:</div><br class="Apple-interchange-newline"><div><meta charset="UTF-8"><div class="WordSection1" style="page: WordSection1; 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;"><div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;"><span lang="EN-US">Hi,<o:p></o:p></span></div><div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;"><span lang="EN-US"><o:p> </o:p></span></div><div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;"><span lang="EN-US">I wanted to build a cut open model of a cryoEM map which I achieved through clipping in Chimera. But I am failing to apply the clipping in a way that I can save the cut open mesh as poligone file for 3D printing. Is this possible?<span class="Apple-converted-space"> </span><o:p></o:p></span></div><div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;"><span lang="EN-US"><o:p> </o:p></span></div><div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;"><span lang="EN-US">All the best,<span class="Apple-converted-space"> </span><o:p></o:p></span></div><div style="margin: 0cm; font-size: 11pt; font-family: Calibri, sans-serif;"><span lang="EN-US"><br>David<o:p></o:p></span></div></div><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;">_______________________________________________</span><br 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;"><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;">Chimera-users mailing list:<span class="Apple-converted-space"> </span></span><a href="mailto:Chimera-users@cgl.ucsf.edu" style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px;">Chimera-users@cgl.ucsf.edu</a><br 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;"><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;">Manage subscription:<span class="Apple-converted-space"> </span></span><a href="https://www.rbvi.ucsf.edu/mailman/listinfo/chimera-users" style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px;">https://www.rbvi.ucsf.edu/mailman/listinfo/chimera-users</a></div></blockquote></div><br></div></body></html>