http://wiki.christophchamp.com/index.php?title=Raster3D&feed=atom&action=history
Raster3D - Revision history
2024-03-28T09:03:28Z
Revision history for this page on the wiki
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http://wiki.christophchamp.com/index.php?title=Raster3D&diff=5612&oldid=prev
Christoph at 22:00, 15 June 2012
2012-06-15T22:00:11Z
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<td colspan='2' style="background-color: white; color:black; text-align: center;">← Older revision</td>
<td colspan='2' style="background-color: white; color:black; text-align: center;">Revision as of 22:00, 15 June 2012</td>
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<tr><td class='diff-marker'>−</td><td style="color:black; 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><del class="diffchange diffchange-inline">The </del>'''Raster3D''' <del class="diffchange diffchange-inline">molecular graphics package consists of </del>a core program <del class="diffchange diffchange-inline">render </del>and <del class="diffchange diffchange-inline">a number </del>of <del class="diffchange diffchange-inline">ancillary </del>programs <del class="diffchange diffchange-inline">that read </del>atomic coordinates from PDB <del class="diffchange diffchange-inline">(Protein Data Bank) </del>files <del class="diffchange diffchange-inline">to produce scene </del>descriptions for <del class="diffchange diffchange-inline">input to render</del>. Raster3D can also render <del class="diffchange diffchange-inline">images </del>composed <del class="diffchange diffchange-inline">using </del>other programs such as [http://www.avatar.se/molscript/ Molscript] and [http://www.sdsc.edu/CCMS/Packages/XTALVIEW/xtalview.html XtalView].</div></td><td class='diff-marker'>+</td><td style="color:black; 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>'''Raster3D''' <ins class="diffchange diffchange-inline">is </ins>a <ins class="diffchange diffchange-inline">set of tools for generating high quality raster images of proteins or other molecules. The </ins>core program <ins class="diffchange diffchange-inline">renders spheres, triangles, cylinders, </ins>and <ins class="diffchange diffchange-inline">quadric surfaces with specular highlighting, Phong shading, and shadowing. It uses an efficient software Z-buffer algorithm which is independent </ins>of <ins class="diffchange diffchange-inline">any graphics hardware. Ancillary </ins>programs <ins class="diffchange diffchange-inline">process </ins>atomic coordinates from PDB files <ins class="diffchange diffchange-inline">into rendering </ins>descriptions for <ins class="diffchange diffchange-inline">pictures composed of ribbons, space-filling atoms, bonds, ball+stick, etc</ins>. Raster3D can also <ins class="diffchange diffchange-inline">be used to </ins>render <ins class="diffchange diffchange-inline">pictures </ins>composed <ins class="diffchange diffchange-inline">in </ins>other programs such as [http://www.avatar.se/molscript/ Molscript] and [http://www.sdsc.edu/CCMS/Packages/XTALVIEW/xtalview.html XtalView] <ins class="diffchange diffchange-inline">in glorious 3D with highlights, shadowing, etc. Output is to pixel image files with 24 bits of color information per pixel</ins>.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>Raster3D is currently maintained by [[Dr. Ethan A. Merritt Laboratory|Ethan A. Merritt]] with additional development by Frank Zucker and [[Christoph Champ|P. Christoph Champ]].</div></td><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>Raster3D is currently maintained by [[Dr. Ethan A. Merritt Laboratory|Ethan A. Merritt]] with additional development by Frank Zucker and [[Christoph Champ|P. Christoph Champ]].</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color:black; 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>*The latest available packaged version is: '''Raster3D <del class="diffchange diffchange-inline">V2</del>.<del class="diffchange diffchange-inline">7s </del>(<del class="diffchange diffchange-inline">2008</del>-<del class="diffchange diffchange-inline">03</del>-<del class="diffchange diffchange-inline">07</del>)'''</div></td><td class='diff-marker'>+</td><td style="color:black; 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>*The latest available packaged version is: '''Raster3D <ins class="diffchange diffchange-inline">V3</ins>.<ins class="diffchange diffchange-inline">0-2 </ins>(<ins class="diffchange diffchange-inline">2011</ins>-<ins class="diffchange diffchange-inline">02</ins>-<ins class="diffchange diffchange-inline">03</ins>)'''</div></td></tr>
<tr><td class='diff-marker'>−</td><td style="color:black; 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>*The latest available source version is: '''Raster3D <del class="diffchange diffchange-inline">V2</del>.<del class="diffchange diffchange-inline">7d </del>(<del class="diffchange diffchange-inline">2008</del>-<del class="diffchange diffchange-inline">03</del>-<del class="diffchange diffchange-inline">07</del>)'''</div></td><td class='diff-marker'>+</td><td style="color:black; 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>*The latest available source version is: '''Raster3D <ins class="diffchange diffchange-inline">V3</ins>.<ins class="diffchange diffchange-inline">0-2 </ins>(<ins class="diffchange diffchange-inline">2011</ins>-<ins class="diffchange diffchange-inline">02</ins>-<ins class="diffchange diffchange-inline">03</ins>)'''</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>==Programs in the Raster3D package==</div></td><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>==Programs in the Raster3D package==</div></td></tr>
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Christoph
http://wiki.christophchamp.com/index.php?title=Raster3D&diff=5382&oldid=prev
Christoph at 21:26, 11 February 2010
2010-02-11T21:26:50Z
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<td colspan='2' style="background-color: white; color:black; text-align: center;">← Older revision</td>
<td colspan='2' style="background-color: white; color:black; text-align: center;">Revision as of 21:26, 11 February 2010</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l1" >Line 1:</td>
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<tr><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>The '''Raster3D''' molecular graphics package consists of a core program render and a number of ancillary programs that read atomic coordinates from PDB (Protein Data Bank) files to produce scene descriptions for input to render. Raster3D can also render images composed using other programs such as [http://www.avatar.se/molscript/ Molscript] and [http://www.sdsc.edu/CCMS/Packages/XTALVIEW/xtalview.html XtalView].</div></td><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>The '''Raster3D''' molecular graphics package consists of a core program render and a number of ancillary programs that read atomic coordinates from PDB (Protein Data Bank) files to produce scene descriptions for input to render. Raster3D can also render images composed using other programs such as [http://www.avatar.se/molscript/ Molscript] and [http://www.sdsc.edu/CCMS/Packages/XTALVIEW/xtalview.html XtalView].</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color:black; 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>Raster3D is currently maintained by [[Dr. Ethan A. Merritt Laboratory|Ethan A. Merritt]].</div></td><td class='diff-marker'>+</td><td style="color:black; 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>Raster3D is currently maintained by [[Dr. Ethan A. Merritt Laboratory|Ethan A. Merritt<ins class="diffchange diffchange-inline">]] with additional development by Frank Zucker and [[Christoph Champ|P. Christoph Champ</ins>]].</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color:black; 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>The latest available version is: '''Raster3D V2.7s (2008-03-07)'''</div></td><td class='diff-marker'>+</td><td style="color:black; 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 class="diffchange diffchange-inline">*</ins>The latest available <ins class="diffchange diffchange-inline">packaged </ins>version is: '''Raster3D V2.7s <ins class="diffchange diffchange-inline">(2008-03-07)'''</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color:black; 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 class="diffchange diffchange-inline">*The latest available source version is: '''Raster3D V2.7d </ins>(2008-03-07)'''</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>==Programs in the Raster3D package==</div></td><td class='diff-marker'> </td><td style="background-color: #f9f9f9; color: #333333; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #e6e6e6; vertical-align: top; white-space: pre-wrap;"><div>==Programs in the Raster3D package==</div></td></tr>
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Christoph
http://wiki.christophchamp.com/index.php?title=Raster3D&diff=5086&oldid=prev
Christoph at 06:18, 20 May 2008
2008-05-20T06:18:09Z
<p></p>
<p><b>New page</b></p><div>The '''Raster3D''' molecular graphics package consists of a core program render and a number of ancillary programs that read atomic coordinates from PDB (Protein Data Bank) files to produce scene descriptions for input to render. Raster3D can also render images composed using other programs such as [http://www.avatar.se/molscript/ Molscript] and [http://www.sdsc.edu/CCMS/Packages/XTALVIEW/xtalview.html XtalView].<br />
<br />
Raster3D is currently maintained by [[Dr. Ethan A. Merritt Laboratory|Ethan A. Merritt]].<br />
<br />
The latest available version is: '''Raster3D V2.7s (2008-03-07)'''<br />
<br />
==Programs in the Raster3D package==<br />
* avs2ps<br />
* balls<br />
* label3d<br />
* normal3d<br />
* rastep<br />
* render<br />
* ribbon<br />
* rings3d<br />
* rods<br />
* stereo3d <br />
<br />
==Examples==<br />
*Create a simple, colour-coded PNG image of a PDB structure:<br />
molauto 1KP8.pdb | molscript -r | render -bg white -size 300x300 -png 1KP8.png<br />
<br />
==References==<br />
*original implementation: Bacon DJ, Anderson WF (1988). "A Fast Algorithm for Rendering Space-Filling Molecule Pictures". ''Journal of Molecular Graphics'' '''6''':219-220. <br />
*version 2.0: Merritt EA, Murphy MEP (1994). "Raster3D Version 2.0: A Program for Photorealistic Molecular Graphics". ''Acta Cryst'' '''D50''':869-873. <br />
*version 2.3: Merritt EA, Bacon DJ (1997). "Raster3D: Photorealistic Molecular Graphics". ''Methods in Enzymology'' '''277''':505-524.<br />
<br />
==External links==<br />
*[http://skuld.bmsc.washington.edu/raster3d/raster3d.html Official Raster3D website]<br />
*[http://www.avatar.se/molscript/ Molscript] (includes <tt>molauto</tt>)<br />
*[http://www.sdsc.edu/CCMS/Packages/XTALVIEW/xtalview.html XtalView]<br />
<br />
[[Category:Crystallography]]<br />
[[Category:Graphics software]]</div>
Christoph