https://wiki.pymol.org/index.php?action=history&feed=atom&title=Talk%3ARay 2026-06-20T03:37:52Z Revision history for this page on the wiki MediaWiki 1.35.1 https://wiki.pymol.org/index.php?title=Talk:Ray&diff=263&oldid=prev 2014-03-28T00:44:10Z

<p>9 revisions</p> <p><b>New page</b></p><div>== Thums in gallery ==<br /> <br /> I've updated images (from performance part). But now the thumbs are not showing. What's wrong?<br /> [[User:Davidov|Davidov]] 05:05, 13 March 2008 (CDT)<br /> <br /> == Performance images ==<br /> <br /> I loaded them with an image processing program. The images are offset outside of the viewable area. Please remake these images and try again. If this keeps happening you may have found a bug. [[User:Inchoate|Tree]] 07:57, 13 March 2008 (CDT)<br /> <br /> :Thanks. It seems to be viewable area issue. [[User:Davidov|Davidov]] 05:47, 15 March 2008 (CDT)<br /> <br /> == Cool idea ==<br /> <br /> A script to automate this task would be really cool:<br /> <br /> One of my tricks is to only show part of the structure at a time, ray each part individually<br /> and the reassemble them in Photoshop. I do this all the time with the huge multi protein PyMol <br /> sessions I have to work on. It depends on your orientation in the viewer though, be careful to<br /> not cut anything off. With the ribo ou can hide the large or the small subunit, render each<br /> separately, and then reassemble.<br /> <br /> == surface outlines ==<br /> I was wondering if folks could give tips on using 'set ray_trace_mode,1' with surface representations. Because of the contours involved you get black lines all over the surface, rather than just around the visible &quot;edges.&quot; Inflating B-factors helps some. Any ideas as to how to improve these? [[User:Baker1|Baker1]]<br /> <br /> Baker, does, '''set ray_trace_gain, 0''' help? See [[ray_trace_gain]].</div>

Pyadmin https://wiki.pymol.org/index.php?title=Talk:Ray&diff=261&oldid=prev 2009-10-05T23:34:22Z

<p></p> <p><b>New page</b></p><div>== Thums in gallery ==<br /> <br /> I've updated images (from performance part). But now the thumbs are not showing. What's wrong?<br /> [[User:Davidov|Davidov]] 05:05, 13 March 2008 (CDT)<br /> <br /> == Performance images ==<br /> <br /> I loaded them with an image processing program. The images are offset outside of the viewable area. Please remake these images and try again. If this keeps happening you may have found a bug. [[User:Inchoate|Tree]] 07:57, 13 March 2008 (CDT)<br /> <br /> :Thanks. It seems to be viewable area issue. [[User:Davidov|Davidov]] 05:47, 15 March 2008 (CDT)<br /> <br /> == Cool idea ==<br /> <br /> A script to automate this task would be really cool:<br /> <br /> One of my tricks is to only show part of the structure at a time, ray each part individually<br /> and the reassemble them in Photoshop. I do this all the time with the huge multi protein PyMol <br /> sessions I have to work on. It depends on your orientation in the viewer though, be careful to<br /> not cut anything off. With the ribo ou can hide the large or the small subunit, render each<br /> separately, and then reassemble.<br /> <br /> == surface outlines ==<br /> I was wondering if folks could give tips on using 'set ray_trace_mode,1' with surface representations. Because of the contours involved you get black lines all over the surface, rather than just around the visible &quot;edges.&quot; Inflating B-factors helps some. Any ideas as to how to improve these? [[User:Baker1|Baker1]]</div>

Baker1 https://wiki.pymol.org/index.php?title=Talk:Ray&diff=258&oldid=prev 2008-03-15T10:47:19Z

<p><span dir="auto"><span class="autocomment">Performance images</span></span></p> <p><b>New page</b></p><div>== Thums in gallery ==<br /> <br /> I've updated images (from performance part). But now the thumbs are not showing. What's wrong?<br /> [[User:Davidov|Davidov]] 05:05, 13 March 2008 (CDT)<br /> <br /> == Performance images ==<br /> <br /> I loaded them with an image processing program. The images are offset outside of the viewable area. Please remake these images and try again. If this keeps happening you may have found a bug. [[User:Inchoate|Tree]] 07:57, 13 March 2008 (CDT)<br /> <br /> :Thanks. It seems to be viewable area issue. [[User:Davidov|Davidov]] 05:47, 15 March 2008 (CDT)</div>

Davidov https://wiki.pymol.org/index.php?title=Talk:Ray&diff=256&oldid=prev 2008-03-13T10:05:16Z

<p><span dir="auto"><span class="autocomment">Thums in gallery: </span> signature</span></p> <table class="diff diff-contentalign-left diff-editfont-monospace" data-mw="interface"> <col class="diff-marker" /> <col class="diff-content" /> <col class="diff-marker" /> <col class="diff-content" /> <tr class="diff-title" lang="en"> <td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">← Older revision</td> <td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 10:05, 13 March 2008</td> </tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l2" >Line 2:</td> <td colspan="2" class="diff-lineno">Line 2:</td></tr> <tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>I've updated images (from performance part). But now the thumbs are not showing. What's wrong?</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>I've updated images (from performance part). But now the thumbs are not showing. What's wrong?</div></td></tr> <tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">[[User:Davidov|Davidov]] 05:05, 13 March 2008 (CDT)</ins></div></td></tr> </table>

Davidov https://wiki.pymol.org/index.php?title=Talk:Ray&diff=255&oldid=prev 2008-03-13T10:05:02Z

<p></p> <table class="diff diff-contentalign-left diff-editfont-monospace" data-mw="interface"> <col class="diff-marker" /> <col class="diff-content" /> <col class="diff-marker" /> <col class="diff-content" /> <tr class="diff-title" lang="en"> <td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">← Older revision</td> <td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 10:05, 13 March 2008</td> </tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l1" >Line 1:</td> <td colspan="2" class="diff-lineno">Line 1:</td></tr> <tr><td class='diff-marker'>−</td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>== Thums in <del class="diffchange diffchange-inline">&lt;</del>gallery<del class="diffchange diffchange-inline">&gt; </del>==</div></td><td class='diff-marker'>+</td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>== Thums in gallery ==</div></td></tr> <tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr> <tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>I've updated images (from performance part). But now the thumbs are not showing. What's wrong?</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>I've updated images (from performance part). But now the thumbs are not showing. What's wrong?</div></td></tr> </table>

Davidov https://wiki.pymol.org/index.php?title=Talk:Ray&diff=254&oldid=prev 2008-03-13T10:04:44Z

<p>Thums in &lt;gallery&gt;</p> <p><b>New page</b></p><div>== Thums in &lt;gallery&gt; ==<br /> <br /> I've updated images (from performance part). But now the thumbs are not showing. What's wrong?</div>

Davidov