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- 16:08, 12 September 2008 diff hist -152 TOPTOC
- 15:41, 12 September 2008 diff hist +321 TOPTOC
- 15:19, 12 September 2008 diff hist +33 Displaying Biochemical Properties →Contact Potential
- 15:18, 12 September 2008 diff hist +187 Displaying Biochemical Properties →Native Nucleic Acid Rendering in PyMol
- 15:15, 12 September 2008 diff hist +36 Nuccyl current
- 15:15, 12 September 2008 diff hist +36 Surfaces and Voids current
- 15:15, 12 September 2008 diff hist +36 Caver
- 15:14, 12 September 2008 diff hist +36 Dss
- 15:14, 12 September 2008 diff hist +14 Displaying Biochemical Properties →Cavities
- 15:14, 12 September 2008 diff hist +146 Displaying Biochemical Properties →Surface Area
- 15:13, 12 September 2008 diff hist +36 Get area
- 15:11, 12 September 2008 diff hist +13 Displaying Biochemical Properties
- 15:10, 12 September 2008 diff hist 0 m Protein contact potential
- 15:09, 12 September 2008 diff hist +37 Protein contact potential
- 15:09, 12 September 2008 diff hist +55 Talk:Displaying Biochemical Properties New section: Organization
- 15:06, 12 September 2008 diff hist +307 Protein contact potential
- 15:05, 12 September 2008 diff hist 0 N File:Prot contact APBS.png current
- 14:53, 12 September 2008 diff hist +1,722 N Protein contact potential New page: Protein_Contact_Potential is an automated PyMOL representation where the false red/blue charge-smoothed surface is shown on the protein. The rule of thumb with respect to PyMOL's inte...
- 14:53, 12 September 2008 diff hist 0 N File:Prot contact pot.png current
- 14:48, 12 September 2008 diff hist +272 APBS
- 14:44, 12 September 2008 diff hist +1,194 Command Line Options
- 14:15, 12 September 2008 diff hist +113 N Talk:Launching PyMOL Cleanup current
- 14:14, 12 September 2008 diff hist -5 Launching PyMOL
- 14:14, 12 September 2008 diff hist +2 Launching PyMOL
- 14:13, 12 September 2008 diff hist +891 Launching PyMOL
- 14:03, 12 September 2008 diff hist +873 N Inchoates pymolrc New page: Here's my example '''~/.pymolrc''' file. <source lang="python"> # sets first residue to 0 on load run ~/playground/pymol_scripts/oload.py # for cealign; optimal superposition run ~/playgr... current
- 13:56, 12 September 2008 diff hist +23 MacOSX-specific .pymolrc file current
- 13:56, 12 September 2008 diff hist +52 Launching From a Script
- 09:01, 12 September 2008 diff hist +99 Visualizing a computed structure - a commented example
- 16:54, 11 September 2008 diff hist +349 Unbond
- 16:39, 11 September 2008 diff hist +15 N File:Unbond2.png Unbond example. current
- 16:39, 11 September 2008 diff hist +15 N File:Unbond1.png Unbond example. current
- 16:37, 11 September 2008 diff hist +507 N Ray trace gain New page: = Overview = When ray tracing, PyMOL knows the Z-depth of coordinates. The ray_trace_gain setting darkens pixels based on their Z-depth. <gallery> Image:Ray trace gain0.png|ray_trace... current
- 16:34, 11 September 2008 diff hist 0 N File:Ray trace gain20.png current
- 16:33, 11 September 2008 diff hist 0 N File:Ray trace gain8.png current
- 16:33, 11 September 2008 diff hist 0 N File:Ray trace gain2.png current
- 16:33, 11 September 2008 diff hist 0 N File:Ray trace gain0.png current
- 16:12, 11 September 2008 diff hist +4 Settings
- 15:54, 11 September 2008 diff hist -60 m Objects and Selections current
- 15:13, 11 September 2008 diff hist +198 Set Symmetry
- 17:47, 10 September 2008 diff hist +21 Load traj
- 17:46, 10 September 2008 diff hist +520 N Defer builds mode New page: = Overview = The defer_builds_mode setting for improved performance with long trajectories. This now makes it possible to work with files containing thousands of states, and to render...
- 17:42, 10 September 2008 diff hist +4 Settings
- 17:35, 9 September 2008 diff hist +497 H Add
- 10:23, 9 September 2008 diff hist +135 Main Page
- 10:22, 9 September 2008 diff hist +1,074 N Removealt New page: = Overview = removeAlt removes all atoms from '''obj''' that have alternate locations but aren't altloc '''keep'''. = The Code = <source lang="python"> def removeAlt(obj="", keep="A")...
- 10:19, 9 September 2008 diff hist +57 Property Selectors →Select All Alternate Locations Except the A-Locations
- 10:02, 9 September 2008 diff hist +1,876 Property Selectors →User Notes
- 09:53, 9 September 2008 diff hist +150 Property Selectors →User Notes
- 12:29, 8 September 2008 diff hist +212 N CASTp New page: = Overview = The CASTpyMOL plugin allows for the visualization of surfaces and voids identified from CASTp using pyMOL. For more information see the [http://sts-fw.bioengr.uic.edu/castp/p...
- 11:24, 8 September 2008 diff hist +2 Main Page
- 11:18, 8 September 2008 diff hist +158 About current
- 10:40, 8 September 2008 diff hist +86 User talk:Ojganesh New section: Covers current
- 10:40, 8 September 2008 diff hist 0 File:040123science.pdf.jpg uploaded a new version of "Image:040123science.pdf.jpg" current
- 10:40, 8 September 2008 diff hist 0 File:040910science.pdf.jpg uploaded a new version of "Image:040910science.pdf.jpg" current
- 10:39, 8 September 2008 diff hist 0 File:050429science.pdf.jpg uploaded a new version of "Image:050429science.pdf.jpg" current
- 10:39, 8 September 2008 diff hist 0 File:050609nature.pdf.jpg uploaded a new version of "Image:050609nature.pdf.jpg" current
- 10:39, 8 September 2008 diff hist 0 File:050722science.pdf.jpg uploaded a new version of "Image:050722science.pdf.jpg" current
- 10:39, 8 September 2008 diff hist 0 File:050908nature.pdf.jpg uploaded a new version of "Image:050908nature.pdf.jpg" current
- 10:39, 8 September 2008 diff hist 0 File:051020nature.pdf.jpg uploaded a new version of "Image:051020nature.pdf.jpg" current
- 10:38, 8 September 2008 diff hist 0 File:060522cnen.pdf.jpg uploaded a new version of "Image:060522cnen.pdf.jpg" current
- 10:38, 8 September 2008 diff hist 0 File:060817nature.pdf.jpg uploaded a new version of "Image:060817nature.pdf.jpg" current
- 10:38, 8 September 2008 diff hist 0 File:060904cnen.pdf.jpg uploaded a new version of "Image:060904cnen.pdf.jpg" current
- 10:38, 8 September 2008 diff hist 0 File:070219cnen.pdf.jpg uploaded a new version of "Image:070219cnen.pdf.jpg" current
- 10:37, 8 September 2008 diff hist 0 File:070405nature.pdf.jpg uploaded a new version of "Image:070405nature.pdf.jpg" current
- 10:37, 8 September 2008 diff hist 0 File:070920nature.pdf.jpg uploaded a new version of "Image:070920nature.pdf.jpg" current
- 10:37, 8 September 2008 diff hist 0 File:071009science.pdf.jpg uploaded a new version of "Image:071009science.pdf.jpg" current
- 10:36, 8 September 2008 diff hist 0 File:071123science.pdf.jpg uploaded a new version of "Image:071123science.pdf.jpg" current
- 10:36, 8 September 2008 diff hist 0 File:071213nature.pdf.jpg uploaded a new version of "Image:071213nature.pdf.jpg" current
- 10:35, 8 September 2008 diff hist 0 File:080602cnen.pdf.jpg uploaded a new version of "Image:080602cnen.pdf.jpg" current
- 10:34, 8 September 2008 diff hist 0 File:080602cnen.pdf.jpg uploaded a new version of "Image:080602cnen.pdf.jpg"
- 10:29, 8 September 2008 diff hist +133 User talk:Ojganesh New section: Covers
- 13:40, 7 September 2008 diff hist +228 Cycle valence
- 13:39, 7 September 2008 diff hist +169 Displaying Biochemical Properties →Displaying double bonds
- 13:38, 7 September 2008 diff hist 0 N File:DoubleBonds.png current
- 16:47, 5 September 2008 diff hist +111 Main Page
- 16:46, 5 September 2008 diff hist +214 Covers →PyMOL-created Journal Covers
- 16:45, 5 September 2008 diff hist +718 N Covers New page: = PyMOL-created Journal Covers = Here are some of the known PyMOL-created Journal Covers. There are surely more out there. If you have a cover you'd like to add, feel free. <gallery per...
- 16:41, 5 September 2008 diff hist 0 N File:080602cnen.pdf.jpg
- 16:41, 5 September 2008 diff hist 0 N File:071213nature.pdf.jpg
- 16:41, 5 September 2008 diff hist 0 N File:071123science.pdf.jpg
- 16:40, 5 September 2008 diff hist 0 N File:071009science.pdf.jpg
- 16:40, 5 September 2008 diff hist 0 N File:070920nature.pdf.jpg
- 16:40, 5 September 2008 diff hist 0 N File:070816nature.pdf.jpg current
- 16:40, 5 September 2008 diff hist 0 N File:070405nature.pdf.jpg
- 16:40, 5 September 2008 diff hist 0 N File:070219cnen.pdf.jpg
- 16:39, 5 September 2008 diff hist 0 N File:070215nature.pdf.jpg current
- 16:39, 5 September 2008 diff hist 0 N File:060904cnen.pdf.jpg
- 16:39, 5 September 2008 diff hist 0 N File:060817nature.pdf.jpg
- 16:39, 5 September 2008 diff hist 0 N File:060522cnen.pdf.jpg
- 16:38, 5 September 2008 diff hist 0 N File:051020nature.pdf.jpg
- 16:38, 5 September 2008 diff hist 0 N File:050908nature.pdf.jpg
- 16:38, 5 September 2008 diff hist 0 N File:050722science.pdf.jpg
- 16:38, 5 September 2008 diff hist 0 N File:050609nature.pdf.jpg
- 16:38, 5 September 2008 diff hist 0 N File:050429science.pdf.jpg
- 16:38, 5 September 2008 diff hist 0 N File:040910science.pdf.jpg
- 16:37, 5 September 2008 diff hist 0 N File:040123science.pdf.jpg
- 16:35, 5 September 2008 diff hist +31 Main Page
- 13:20, 3 September 2008 diff hist +85 Cealign plugin →Mac OS X (10.5)
- 13:17, 3 September 2008 diff hist +27 N File:Cealign mac os x.png Cealign running on Mac OS X current
- 13:13, 3 September 2008 diff hist +322 Cealign plugin →Installation
- 13:04, 2 September 2008 diff hist +28 3DNA
- 13:00, 2 September 2008 diff hist +80 Publication Quality Images →See Also
- 12:59, 2 September 2008 diff hist +146 Line smooth current
- 12:57, 2 September 2008 diff hist +21 Windows Install
- 12:57, 2 September 2008 diff hist +18 MacOSX-specific .pymolrc file
- 07:28, 29 August 2008 diff hist +100 Stick nub current
- 17:16, 28 August 2008 diff hist +31 Cartoon →USAGE
- 17:13, 28 August 2008 diff hist +265 Talk:Main Page
- 17:10, 28 August 2008 diff hist +22 Surface
- 17:10, 28 August 2008 diff hist +859 Surface →Settings
- 17:07, 28 August 2008 diff hist +277 Stick radius
- 17:04, 28 August 2008 diff hist +11 N File:Stick rad 0.85.png Fat sticks. current
- 17:04, 28 August 2008 diff hist +13 N File:Stick rad 0.05.png Skinny sticks current
- 17:02, 28 August 2008 diff hist +20 N File:Stick radius default.png Stick radius default current
- 17:02, 28 August 2008 diff hist +20 Stick color current
- 17:00, 28 August 2008 diff hist +20 Stick transparency
- 17:00, 28 August 2008 diff hist +20 Stick ball ratio current
- 17:00, 28 August 2008 diff hist +20 Stick ball
- 17:00, 28 August 2008 diff hist +20 Ball and Stick
- 16:59, 28 August 2008 diff hist +20 Sticks
- 16:59, 28 August 2008 diff hist +20 Stick nub
- 16:58, 28 August 2008 diff hist +32 Stick nub
- 16:58, 28 August 2008 diff hist +208 Stick nub
- 16:56, 28 August 2008 diff hist +20 N File:Sticknub 2.png Stick nub set to 2.0 current
- 16:56, 28 August 2008 diff hist +11 N File:Sticknub 0.png Stick_nub 0 current
- 16:55, 28 August 2008 diff hist 0 N File:Sticknub default.png current
- 16:51, 28 August 2008 diff hist +265 Sticks →Sticks Settings
- 16:50, 28 August 2008 diff hist +139 Sticks
- 15:16, 28 August 2008 diff hist -700 Main Page
- 14:10, 28 August 2008 diff hist +423 Talk:Main Page New section: Needed Editing
- 13:57, 28 August 2008 diff hist +22 Get Color Indices
- 13:57, 28 August 2008 diff hist +22 Sphere color
- 13:57, 28 August 2008 diff hist +22 Cartoon color
- 13:57, 28 August 2008 diff hist +22 Bg rgb
- 13:57, 28 August 2008 diff hist +22 Cartoon nucleic acid color current
- 13:57, 28 August 2008 diff hist +22 Cartoon discrete colors current
- 13:57, 28 August 2008 diff hist +22 Cartoon highlight color
- 13:57, 28 August 2008 diff hist +22 Ribbon color
- 13:56, 28 August 2008 diff hist +22 Resicolor plugin
- 13:56, 28 August 2008 diff hist +22 Stick color
- 13:55, 28 August 2008 diff hist +22 Surface color
- 13:54, 28 August 2008 diff hist +22 Colorama
- 13:54, 28 August 2008 diff hist +22 Mesh color current
- 12:55, 28 August 2008 diff hist +974 Mesh
- 12:46, 28 August 2008 diff hist +19 N File:Mesh w05.png Thinner mesh -- 0.5 current
- 12:45, 28 August 2008 diff hist +12 N File:Mesh rm0.png Mesh in rm0. current
- 12:44, 28 August 2008 diff hist +29 N File:Mesh rm3.png Mesh ex. in ray_trace_mode 3. current
- 11:29, 28 August 2008 diff hist +131 Mesh
- 12:01, 26 August 2008 diff hist +148 User talk:Ojganesh New section: Gallery
- 10:28, 26 August 2008 diff hist +149 Main Page
- 10:20, 26 August 2008 diff hist +42 Centroid
- 10:19, 26 August 2008 diff hist +3,066 N Centroid New page: == Overview == COM is a small script that returns the value of the center of mass of your selection. It also can translate the object of that selection to the origin. == Syntax == <...
- 18:18, 25 August 2008 diff hist +102 m CBC
- 18:16, 25 August 2008 diff hist +5 m CBC →Usage
- 18:16, 25 August 2008 diff hist +94 CBC
- 18:15, 25 August 2008 diff hist +259 CBC
- 18:11, 25 August 2008 diff hist +17 N Util.cbc Util.cbc moved to CBC: Can't link to the original name for some reason. Will redirect. current
- 18:11, 25 August 2008 diff hist 0 m CBC Util.cbc moved to CBC: Can't link to the original name for some reason. Will redirect.
- 18:09, 25 August 2008 diff hist +439 N CBC New page: == Overview == Util.cbc stands for '''color by chain'''. This simply colors molecules by their chains, as the name suggests. The affects of CBC are shown in the following images. <g...
- 18:06, 25 August 2008 diff hist +6 N File:Cbc1.png CBC on current
- 18:05, 25 August 2008 diff hist +9 N File:Cbc0.png CBC, off. current
- 17:55, 25 August 2008 diff hist +290 N User talk:Ojganesh New page: # Ojganesh, please feel free to make any changes as you see fit. If you think you can improve something, go for it! BTW, that image is great, well done! # If you want to keep making good...
- 17:54, 25 August 2008 diff hist -207 User:Ojganesh Replacing page with 'me.' current
- 16:04, 25 August 2008 diff hist +207 User:Ojganesh
- 14:52, 25 August 2008 diff hist +10 Gallery
- 14:51, 25 August 2008 diff hist +1,379 Gallery
- 14:46, 25 August 2008 diff hist +47 N File:Image merged.png Example image for the gallery, showing a slice. current
- 16:24, 21 August 2008 diff hist +192 Indicate
- 16:22, 21 August 2008 diff hist 0 File:Ind1.png uploaded a new version of "Image:Ind1.png" current
- 16:21, 21 August 2008 diff hist +75 N File:Ind1.png Indicate on. Notice the small red dots (actually larger when not "drawn").
- 16:20, 21 August 2008 diff hist +13 N File:Ind0.png Indicate off. current
- 15:40, 21 August 2008 diff hist +47 Center →User Example
- 15:40, 21 August 2008 diff hist +186 Center
- 15:37, 21 August 2008 diff hist +147 Ray →SEE ALSO
- 15:19, 21 August 2008 diff hist +123 Main Page
- 15:18, 21 August 2008 diff hist +1,580 N Nonstandard Amino Acids New page: == Overview == This page talks a little about how PyMOL deals with nonstandard amino acids, and the various representations and options available. By default, PyMOL considers [http://en.w...
- 14:48, 21 August 2008 diff hist +782 Surface mode
- 14:40, 21 August 2008 diff hist +14 N File:Sm1.png Surface mode 1 current
- 14:38, 21 August 2008 diff hist +22 N File:Sm0.png Surface mode set to 0. current
- 16:02, 19 August 2008 diff hist -8 Isomesh
- 16:02, 19 August 2008 diff hist -8 Isodot
- 16:02, 19 August 2008 diff hist -12 Isosurface
- 14:34, 6 August 2008 diff hist +34 Talk:Label
- 14:34, 6 August 2008 diff hist +43 Label →Unicdoe Fonts
- 09:32, 6 August 2008 diff hist +84 N Talk:Label New page: == Fixes == * need to ensure the LaTeX math mode comes back soon, or remove the \AA.
- 09:16, 6 August 2008 diff hist 0 Label →Unicdoe Fonts
- 09:16, 6 August 2008 diff hist +912 Label →FONT
- 09:04, 6 August 2008 diff hist 0 File:Font ex.png uploaded a new version of "Image:Font ex.png": New, w/black BG. current
- 09:01, 6 August 2008 diff hist +32 N File:Font ex.png Font example with unicode fonts.
- 12:36, 1 August 2008 diff hist -202 Main Page
- 11:23, 1 August 2008 diff hist +88 Main Page
- 11:15, 1 August 2008 diff hist +114 Main Page
- 08:38, 1 August 2008 diff hist +487 N Thank You New page: __NOTOC__ {| align="center" width="40%;" |+ style="font-size:200%; font-weight: bold; color:#038; text-align:center; padding: 5px; margin-bottom: 15px" | Thank You! |- style="text-align:c... current
- 17:03, 31 July 2008 diff hist +182 Property Selectors →User Notes
- 10:55, 31 July 2008 diff hist +603 Dots
- 17:52, 30 July 2008 diff hist +31 N Talk:Resicolor plugin New page: Thanks, this is a great plugin! current
- 15:48, 28 July 2008 diff hist +339 Main Page
- 09:40, 28 July 2008 diff hist +178 N Category:VRML New page: This is the main category page for VRML (virtual reality modeling language) output files. PyMOL can output its objects as VRML models for input into other 3D rendering programs. current
- 09:39, 28 July 2008 diff hist +18 Surface →Creating a Closed Surface
- 09:39, 28 July 2008 diff hist +382 N Vrml New page: PyMOL can export wireframe/VRML models to file. You can most easily do this through exporting the mesh/surface. == Increasing th... current
- 09:37, 28 July 2008 diff hist +79 Surface →Exporting Surface/Mesh Coordinates to File
- 15:44, 9 July 2008 diff hist +330 Transparency →Selected Surface Elements
- 15:43, 9 July 2008 diff hist +51 N File:Diffy transp2.png Differing transparency settings on the same object. current
- 15:40, 9 July 2008 diff hist +67 N File:Diffy transp.png Differing (surface) transparency settings on two different objects. current
- 15:30, 9 July 2008 diff hist +237 N Async builds New page: == Overview == A ''beta'' setting. This setting controls how PyMOL sends out the geometry tasks for certain commands. Turning this on, should speed up PyMOL in general. == Syntax == <so...
- 15:29, 9 July 2008 diff hist +4 Settings
- 15:29, 9 July 2008 diff hist +230 N Movie loop New page: == Overview == This setting controls whether or not PyMOL loops your movies. == Syntax == <source lang="python"> # turn off looping set movie_loop, 0 # turn on looping set movie_loop, 1...
- 15:28, 9 July 2008 diff hist +4 Settings
- 17:59, 18 June 2008 diff hist -4 m Gallery
- 17:59, 18 June 2008 diff hist +845 Gallery
- 17:55, 18 June 2008 diff hist 0 File:QuteMolLike.png uploaded a new version of "Image:QuteMolLike.png": V2. current
- 17:53, 18 June 2008 diff hist +19 N File:QuteMolLike.png QuteMol like image.
- 16:54, 15 June 2008 diff hist +192 Translate
- 16:50, 15 June 2008 diff hist +242 Launching PyMOL →<b>MacOS X:</b>
- 08:17, 11 June 2008 diff hist +213 N Get Version New page: == DESCRIPTION == '''get_version''' returns the version string of the current PyMOL program. == PYMOL API == <source lang="python"> # get the version cmd.get_version() </source> [[Catego...
- 14:35, 1 June 2008 diff hist -1,185 Template:GalleryImage
- 14:35, 1 June 2008 diff hist +1,185 Template:GalleryImage
- 14:27, 1 June 2008 diff hist +51 Gallery
- 14:27, 1 June 2008 diff hist +632 Talk:Gallery current
- 14:20, 1 June 2008 diff hist +23 m Template:GalleryImage
- 14:19, 1 June 2008 diff hist -23 m Template:GalleryImage
- 14:19, 1 June 2008 diff hist +23 Template:GalleryImage
- 13:51, 31 May 2008 diff hist +617 N Surface type New page: = Overview = '''Surface_type''' sets the type (dots, filled triangles, empty triangles) of the surface that PyMOL will render. = Syntax = <source lang="python"> set surface_type, type... current
- 13:48, 31 May 2008 diff hist +15 N File:St3.png Surface type 3? current
- 13:47, 31 May 2008 diff hist +14 N File:St2.png Surface type 2 current
- 13:47, 31 May 2008 diff hist +14 N File:St1.png Surface type 1 current
- 13:47, 31 May 2008 diff hist +14 N File:St0.png Surface type 0 current
- 13:44, 31 May 2008 diff hist +8 Settings
- 13:44, 31 May 2008 diff hist +47 Surface carve selection
- 13:44, 31 May 2008 diff hist +51 Surface carve normal cutoff current
- 13:43, 31 May 2008 diff hist +44 Surface carve cutoff
- 13:42, 31 May 2008 diff hist -32 Surface carve cutoff
- 13:42, 31 May 2008 diff hist +32 m Surface carve cutoff
- 13:42, 31 May 2008 diff hist +421 N Surface carve normal cutoff New page: = Overview = '''surface_carve_normal_cutoff''' will hide all triangles in a selection not facing the carved selection. = Syntax = <source lang="python"> # set the surface carving cuto...
- 13:40, 31 May 2008 diff hist +475 N Surface carve cutoff New page: = Overview = '''surface_carve_cutoff''' sets the distance after which all triangles in the surface representation will be cutoff (or hidden). = Syntax = <source lang="python"> # set t...
- 13:39, 31 May 2008 diff hist +520 N Surface carve selection New page: = Overview = '''surface_carve_selection''' sets the selection for surface_carve_cutoff from which the cutoff hides the triangles in the surface representation. = Syntax = <source ...
- 13:35, 31 May 2008 diff hist +665 N Extract New page: =DESCRIPTION= '''extract''' removes the atom selection from an object and creates it as its own object. This allows one to gain independent control over atoms in a scene by ''extracti... current
- 13:30, 31 May 2008 diff hist -1 Gallery
- 13:28, 31 May 2008 diff hist +39 N File:Pocket.png Gallery image showing a binding pocket. current
- 13:27, 31 May 2008 diff hist +746 Gallery
- 13:19, 31 May 2008 diff hist +282 MAC Install →PyMOLX11Hybrid
- 19:27, 30 May 2008 diff hist +57 Template:GalleryImage
- 19:25, 30 May 2008 diff hist -1 Template:GalleryImage
- 19:24, 30 May 2008 diff hist -6 Template:GalleryImage
- 19:23, 30 May 2008 diff hist 0 Template:GalleryImage
- 19:23, 30 May 2008 diff hist +6 m Template:GalleryImage
- 19:23, 30 May 2008 diff hist 0 Template:GalleryImage
- 19:22, 30 May 2008 diff hist +6 Template:GalleryImage
- 19:20, 30 May 2008 diff hist +18 Template:GalleryImage
- 19:19, 30 May 2008 diff hist +347 N Talk:Gallery New page: == Ideas? == I'd like to make this easy for folks to use. The template kinda' made things ... less easy. Try adding something and let me know if it works. Also, I'll need to make the st...
- 19:18, 30 May 2008 diff hist +262 Gallery
- 19:15, 30 May 2008 diff hist +5 Template:GalleryImage
- 19:13, 30 May 2008 diff hist 0 Template:GalleryImage
- 19:12, 30 May 2008 diff hist +3 Template:GalleryImage
- 19:09, 30 May 2008 diff hist +133 Gallery
- 19:06, 30 May 2008 diff hist +2 Template:GalleryImage
- 19:05, 30 May 2008 diff hist +66 Template:GalleryImage
- 19:02, 30 May 2008 diff hist -31 Template:GalleryImage
- 19:01, 30 May 2008 diff hist +31 Template:GalleryImage
- 19:00, 30 May 2008 diff hist -28 Template:GalleryImage
- 19:00, 30 May 2008 diff hist -3 Template:GalleryImage
- 18:54, 30 May 2008 diff hist 0 Gallery
- 18:40, 30 May 2008 diff hist +32 Template:GalleryImage
- 18:39, 30 May 2008 diff hist +37 Template:GalleryImage
- 18:38, 30 May 2008 diff hist +52 Gallery
- 18:37, 30 May 2008 diff hist +13 Template:GalleryImage
- 18:35, 30 May 2008 diff hist +32 Gallery
- 18:35, 30 May 2008 diff hist +70 Template:GalleryImage
- 18:33, 30 May 2008 diff hist +38 Template:GalleryImage
- 18:29, 30 May 2008 diff hist -6 Template:GalleryImage
- 18:28, 30 May 2008 diff hist +25 Template:GalleryImage
- 18:27, 30 May 2008 diff hist +5 Template:GalleryImage
- 18:27, 30 May 2008 diff hist 0 Template:GalleryImage
- 18:23, 30 May 2008 diff hist +30 Template:GalleryImage
- 18:22, 30 May 2008 diff hist +99 Template:GalleryImage
- 18:20, 30 May 2008 diff hist +16 Template:GalleryImage
- 18:20, 30 May 2008 diff hist +6 Template:GalleryImage
- 18:20, 30 May 2008 diff hist +73 m Gallery
- 18:18, 30 May 2008 diff hist -1 Template:GalleryImage
- 18:18, 30 May 2008 diff hist +13 Template:GalleryImage
- 18:17, 30 May 2008 diff hist -181 Template:GalleryImage
- 18:12, 30 May 2008 diff hist +32 m Template:GalleryImage
- 18:11, 30 May 2008 diff hist +19 Template:GalleryImage
- 18:11, 30 May 2008 diff hist +141 Template:GalleryImage
- 18:08, 30 May 2008 diff hist -40 Template:GalleryImage
- 18:06, 30 May 2008 diff hist -6 Template:GalleryImage
- 18:04, 30 May 2008 diff hist +21 m Template:GalleryImage
- 17:58, 30 May 2008 diff hist +341 N Template:GalleryImage New page: <noinclude> ==GalleryImage Template== '''Usage:''' <nowiki>{{GalleryImage</nowiki><br><nowiki> | image=Image:ImageName.png</nowiki><br><nowiki> | size=250px</nowiki><br><nowiki> | capt...
- 17:43, 30 May 2008 diff hist +281 Gallery
- 16:38, 30 May 2008 diff hist +18 N Gallery New page: == Coming Soon! ==
- 16:22, 30 May 2008 diff hist +244 Main Page
- 10:39, 21 May 2008 diff hist -440 Main Page
- 10:39, 21 May 2008 diff hist +473 Older News
- 07:50, 20 May 2008 diff hist +136 Bond
- 17:50, 19 May 2008 diff hist +980 N Python New page: == DESCRIPTION == Issuing the '''Python''' command will put you into a stateful pseudo-interactive Python session. Or, more simply it's stateful in that you can invoke the Python sess...
- 11:30, 19 May 2008 diff hist +100 Capture
- 11:24, 19 May 2008 diff hist +11 Group →Overview
- 11:24, 19 May 2008 diff hist -18 Group →Overview
- 11:23, 19 May 2008 diff hist +357 Group →Overview
- 11:19, 19 May 2008 diff hist +22 N File:Group on2.png Grouping on; expanded. current
- 11:19, 19 May 2008 diff hist +23 N File:Group on1.png Grouping on; collapsed. current
- 11:18, 19 May 2008 diff hist +65 N File:Group off.png Image showing three proteins loaded into PyMOL. No grouping set. current
- 10:27, 19 May 2008 diff hist -10,671 Script Tutorial →Advanced Scripts
- 10:25, 19 May 2008 diff hist -13 Script Tutorial
- 10:20, 19 May 2008 diff hist 0 Category:Development current
- 10:20, 19 May 2008 diff hist +22 Category:Development
- 10:19, 19 May 2008 diff hist +23 Category:Development
- 10:14, 19 May 2008 diff hist +3,266 Advanced Scripting →Comments
- 09:51, 19 May 2008 diff hist +853 Advanced Scripting →Initialization
- 09:41, 19 May 2008 diff hist +282 Advanced Scripting →Sending the Results back to Python/PyMOL
- 09:38, 19 May 2008 diff hist -145 Advanced Scripting →More Complex Unpacking
- 09:38, 19 May 2008 diff hist +293 Advanced Scripting →More Complex Unpacking
- 09:36, 19 May 2008 diff hist -20 Advanced Scripting →More Complex Unpacking
- 09:36, 19 May 2008 diff hist +563 Advanced Scripting →Python, PyMOL and C
- 09:11, 19 May 2008 diff hist +237 N Capture New page: ===DESCRIPTION=== '''Capture''' obtains the entire openGL window. ===USAGE=== capture ===PYMOL API=== <source lang="python"> cmd.capture </source> == Updates == More info on this comma...
- 14:36, 13 May 2008 diff hist +25 PyMOLWiki:Community Portal
- 09:11, 8 May 2008 diff hist -11 User:Inchoate
- 10:51, 28 April 2008 diff hist -11 Load →SEE ALSO
- 08:20, 26 April 2008 diff hist +163 Load
- 16:36, 25 April 2008 diff hist +1 Load
- 16:35, 25 April 2008 diff hist +503 Load →User Comments/Examples=
- 08:23, 23 April 2008 diff hist +809 User talk:Skyboy psu New section: Transparent BG current
- 08:21, 23 April 2008 diff hist +28 N File:Out.png Example for transparent BGs. current
- 08:35, 21 April 2008 diff hist -8 m ImmersiveViz I removed the extra brackets from around the external links. External links usually get one enclosing bracket, not two.
- 17:03, 10 April 2008 diff hist +130 Talk:CheatSheet New section: Correct
- 07:54, 8 April 2008 diff hist +137 Talk:Linux Install
- 07:53, 8 April 2008 diff hist +768 Linux Install →Compiling By Hand
- 18:12, 31 March 2008 diff hist +190 N Surface mode New page: == Overview == Sets how PyMOL draws the surface. == Syntax == <source lang="python"> set surface_mode, int </source> where int is in the range of 0 to 4. [[Category:Settings|Surface mode...
- 18:02, 31 March 2008 diff hist +4 Settings
- 17:43, 31 March 2008 diff hist +1,376 N Pseudoatom New page: == DESCRIPTION == pseudoatom adds a pseudoatom to a molecular object, and will creating the molecular object if it does not yet exist. == USAGE == <source lang="python"> pseudoato...
- 14:31, 28 March 2008 diff hist +43 TODO current
- 14:16, 28 March 2008 diff hist +7 Scene →USAGE (newer v1.1.b4)
- 14:08, 28 March 2008 diff hist -1,607 Scene →NOTES
- 10:53, 28 March 2008 diff hist +152 N TODO New page: List of things I want to do here: * Add the frame command * Provide better information on states, frames, and scenes * Better movie making documentation
- 10:51, 28 March 2008 diff hist +39 Category:Representations current
- 10:50, 28 March 2008 diff hist +1,233 N As New page: == DESCRIPTION == as turns on and off atom and bond representations, where the available representations are the usual: *lines *spheres *mesh ...
- 14:34, 27 March 2008 diff hist +88 CheatSheet
- 14:33, 27 March 2008 diff hist +22 N File:PyMOLreferenceCard.zip PyMOL Cheat Sheet Code
- 12:15, 27 March 2008 diff hist +1,906 Scene
- 12:09, 27 March 2008 diff hist +641 Scene
- 18:48, 25 March 2008 diff hist -138 Cealign plugin →Updates
- 18:48, 25 March 2008 diff hist +379 Cealign plugin →The Code
- 18:42, 25 March 2008 diff hist +21 N File:Cealign-0.9.zip Untested CEalign 0.9. current
- 17:13, 25 March 2008 diff hist -587 Cealign plugin →Updates
- 17:13, 25 March 2008 diff hist +211 Cealign plugin →Updates
- 13:45, 24 March 2008 diff hist +58 Grid mode →Example
- 13:45, 24 March 2008 diff hist +113 N File:Wow grid mode.png 159 proteins loaded in grid mode! I thought PyMOL would crash upon doing this many, but it handled it with ease. current
- 08:10, 24 March 2008 diff hist +340 Cealign plugin →Troubleshooting
- 13:49, 18 March 2008 diff hist +89 Main Page
- 08:48, 17 March 2008 diff hist +14 N User:Syshiran009 New page: Idiot spammer. current
- 10:50, 13 March 2008 diff hist +6 Main Page
- 10:43, 13 March 2008 diff hist +109 Monitors Hardware Options →Nvidia Cards
- 10:42, 13 March 2008 diff hist +281 Monitors Hardware Options →Nvidia Cards
- 08:57, 13 March 2008 diff hist +120 User talk:Orpheus New section: Images current
- 08:57, 13 March 2008 diff hist +272 Talk:Ray New section: Performance images
- 08:54, 13 March 2008 diff hist -26 Rotamer Toggle
- 13:58, 12 March 2008 diff hist +50 Talk:CheatSheet
- 13:58, 12 March 2008 diff hist +151 m Talk:CheatSheet
- 11:42, 12 March 2008 diff hist +15 m Main Page
- 10:13, 12 March 2008 diff hist +15 CheatSheet
- 10:12, 12 March 2008 diff hist +449 Main Page
- 10:04, 12 March 2008 diff hist +37 Main Page
- 10:00, 12 March 2008 diff hist +359 N CheatSheet New page: == Overview == 400px|center Call it a cheat sheet, reference card (ref card), whatever, people love them. Robert "Bryn" Fenwick donated this one to the general popul...
- 09:58, 12 March 2008 diff hist +24 N File:Refcard.png Reference card snapshot. current
- 09:52, 12 March 2008 diff hist +68 N File:PymolRef.pdf PyMOL Cheat Sheet. Used with permission from Robert "Bryn" Fenwick
- 15:53, 11 March 2008 diff hist +161 Talk:Cealign plugin →Requests?
- 15:43, 11 March 2008 diff hist +1,110 Transform selection
- 18:35, 10 March 2008 diff hist +330 Main Page
- 18:31, 10 March 2008 diff hist +196 Talk:Cealign plugin New section: Requests?
- 18:14, 10 March 2008 diff hist 0 Transform selection
- 14:49, 10 March 2008 diff hist +363 Transform selection
- 11:35, 10 March 2008 diff hist -8 Advanced Scripting →Reference Counting
- 11:35, 10 March 2008 diff hist -2 Advanced Scripting →C++
- 08:49, 10 March 2008 diff hist +327 Ray →Modes
- 08:41, 10 March 2008 diff hist +24 N Talk:Group New page: Are my examples correct? current
- 08:39, 10 March 2008 diff hist +597 Nm Group New page: == Overview == The Group command creates or updates a "group" object. == Usage == <source lang="python"> group name, members, action </source> == Example == <source lang="python"> gr...
- 20:33, 7 March 2008 diff hist +511 Advanced Scripting →Python, PyMOL and C
- 18:16, 6 March 2008 diff hist -12 Main Page
- 18:16, 6 March 2008 diff hist 0 Main Page
- 18:15, 6 March 2008 diff hist -14 Main Page
- 18:15, 6 March 2008 diff hist +440 Settings
- 18:08, 6 March 2008 diff hist -1 Hash max
- 18:08, 6 March 2008 diff hist +681 N Hash max New page: == Overview == hash_max sets how much memory PyMOL uses when ray tracing. Use more then PyMOL will ray trace more quickly, less it's slower. For large scenes, it's useful to turn up...
- 18:02, 6 March 2008 diff hist +172 PyMOLWiki:Community Portal →New! GeShi: Syntax Highlighting for Python & More
- 17:57, 6 March 2008 diff hist +26 PyMOLWiki:Community Portal →What to Do
- 17:56, 6 March 2008 diff hist +108 PyMOLWiki:Community Portal →What to Do
- 17:54, 6 March 2008 diff hist +32 Sync
- 17:53, 6 March 2008 diff hist +75 Transform odb.py
- 17:51, 6 March 2008 diff hist +43 Stereo Figures
- 17:51, 6 March 2008 diff hist +164 Stereo Figures
- 17:49, 6 March 2008 diff hist +35 Mutagenesis
- 17:38, 6 March 2008 diff hist +35 Movit
- 17:37, 6 March 2008 diff hist +26 N Editing set dihedral Editing set dihedral moved to Set dihedral: Bad page name. Fixed. current
- 17:37, 6 March 2008 diff hist 0 m Set Dihedral Editing set dihedral moved to Set dihedral: Bad page name. Fixed.
- 17:36, 6 March 2008 diff hist +148 N Category:Coloring New page: PyMOL allows very flexible coloring options, so you get that look that's "just right". These pages will help you find coloring-related information.
- 17:35, 6 March 2008 diff hist -5 Advanced Coloring →Coloring secondary structures
- 17:35, 6 March 2008 diff hist +40 Advanced Coloring
- 17:30, 6 March 2008 diff hist +23 Plugins Tutorial
- 17:29, 6 March 2008 diff hist +24 Practical Pymol for Beginners
- 17:29, 6 March 2008 diff hist +212 N Category:Tutorials New page: The pages here were all designed to help people quickly learn some basic aspect of PyMOL. There is a great amount of information on the wiki, but sometimes it's not organized enough. Her... current
- 17:27, 6 March 2008 diff hist +243 Main Page
- 17:25, 6 March 2008 diff hist +23 Simple Scripting
- 17:24, 6 March 2008 diff hist +42 Advanced Scripting
- 17:24, 6 March 2008 diff hist +11,155 N Advanced Scripting New page: On this page, we discuss more complex scripting. Python is great, but it is much slower at mathematics than C/C++/Java/FORTRAN. For that reason, you may find it more useful to export you...
- 16:35, 6 March 2008 diff hist +34 Simple Scripting
- 16:27, 6 March 2008 diff hist +6,954 N Simple Scripting
- 10:43, 6 March 2008 diff hist +101 N Talk:Script Tutorial New page: I will probably separate this page down to at least two pages: * basic scripting * advanced scripting current
- 10:29, 6 March 2008 diff hist +612 Category:Development
- 10:23, 6 March 2008 diff hist +13 Main Page
- 10:17, 6 March 2008 diff hist -1,083 Main Page
- 16:17, 5 March 2008 diff hist +285 N Grid slot New page: == Overview == Sets the grid slot location for a given object. == Syntax == <source lang="python"> set grid_slot, int, obj </source> where '''int''' is the number of the grid slot and '''...
- 16:14, 5 March 2008 diff hist +119 Grid mode →Overview
- 16:13, 5 March 2008 diff hist +27 Grid mode
- 15:25, 4 March 2008 diff hist +26 N Category:Development New page: Development Tutorials Here
- 17:07, 23 February 2008 diff hist +48 Category:FAQ
- 09:40, 22 February 2008 diff hist +305 Talk:APBS New section: Question/Crash
- 20:21, 21 February 2008 diff hist +213 Talk:APBS New section: Well done!
- 09:41, 19 February 2008 diff hist +110 Single-word Selectors
- 17:03, 18 February 2008 diff hist +88 N Talk:Resicolor New page: Good stuff. Thanks for the script. ~~~~ current
- 13:13, 18 February 2008 diff hist +86 Talk:Grid mode current
- 10:08, 16 February 2008 diff hist +831 N Grid mode New page: == Overview == '''grid_mode''' partitions the screen into a grid and displays each molecule in one grid location. Each molecule rotates, zooms, etc in that grid. A possibly very useful...
- 10:06, 16 February 2008 diff hist +34 N File:Gm2.png Grid_mode on -- lots of molecules. current
- 10:03, 16 February 2008 diff hist +13 N File:Gm1.png Grid mode on. current
- 10:02, 16 February 2008 diff hist +30 N File:Gm0.png Grid mode off (normal setting) current
- 09:59, 16 February 2008 diff hist +3 Main Page
- 09:59, 16 February 2008 diff hist +103 Main Page
- 09:55, 16 February 2008 diff hist +968 Intra fit →EXAMPLES
- 09:49, 16 February 2008 diff hist +2,111 Script Tutorial →Advanced Scripts
- 09:31, 16 February 2008 diff hist -467 Script Tutorial →Getting PyMOL Data into your Script
- 09:31, 16 February 2008 diff hist +592 Script Tutorial →General Scripts
- 09:26, 16 February 2008 diff hist +84 Script Tutorial →Notes
- 09:25, 16 February 2008 diff hist +219 Script Tutorial →Introduction
- 09:21, 16 February 2008 diff hist +1,906 Script Tutorial →Getting Your Data from C back into Python/PyMOL
- 09:07, 16 February 2008 diff hist +256 N Transform selection New page: == Overview == '''transform_selection''' applies a transformation matrix to a selection. == Example == <source lang="python"> cmd.transform_selection("a", [[x,x,x,x],[x,x,x,x],[x,x,x,x],[...
- 09:04, 16 February 2008 diff hist +8 Transform odb
- 14:54, 8 February 2008 diff hist +5,706 Script Tutorial →Getting Your Data From Python/PyMOL into C
- 17:17, 7 February 2008 diff hist -1,458 Script Tutorial →Example
- 12:22, 7 February 2008 diff hist -250 Main Page
- 11:18, 7 February 2008 diff hist -5 Script Tutorial
- 11:15, 7 February 2008 diff hist +6 Main Page
- 11:14, 7 February 2008 diff hist +548 Main Page
- 10:46, 7 February 2008 diff hist -9 m Seq view
- 10:45, 7 February 2008 diff hist -5 m Seq view
- 20:29, 6 February 2008 diff hist +165 Script Tutorial →Getting Your Data From Python/PyMOL into C
- 20:25, 6 February 2008 diff hist +582 Script Tutorial →Other Languages
- 20:22, 6 February 2008 diff hist +4,128 Script Tutorial →Example
- 20:20, 6 February 2008 diff hist +1,314 Script Tutorial
- 20:10, 6 February 2008 diff hist +2,190 N Script Tutorial New page: = Introduction = One of the more powerful features of PyMOL is that it supports Python scripting. That gives you the power of using all the Python libraries. You can even use the Python ...
- 17:25, 4 February 2008 diff hist +12 Main Page
- 11:11, 31 January 2008 diff hist -20 m Mdump
- 11:11, 31 January 2008 diff hist +85 Draw →DESCRIPTION
- 11:10, 31 January 2008 diff hist +33 Draw
- 09:21, 28 January 2008 diff hist -1 Super
- 09:21, 28 January 2008 diff hist +431 Super
- 09:20, 28 January 2008 diff hist +302 Align →DESCRIPTION
- 09:21, 24 January 2008 diff hist +384 Cartoon →USAGE
- 09:17, 24 January 2008 diff hist +16 N File:Cartoon dumbbell.png cartoon dumbbell current
- 09:16, 24 January 2008 diff hist +13 N File:Cartoon arrow.png cartoon arrow current
- 09:16, 24 January 2008 diff hist +12 N File:Cartoon tube.png cartoon tube current
- 09:15, 24 January 2008 diff hist +12 N File:Cartoon oval.png cartoon oval current
- 09:15, 24 January 2008 diff hist +17 N File:Cartoon rectangle.png cartoon rectangle current
- 09:14, 24 January 2008 diff hist +12 N File:Cartoon loop.png cartoon loop current
- 09:14, 24 January 2008 diff hist +17 N File:Cartoon automatic.png cartoon automatic current
- 09:13, 24 January 2008 diff hist +12 N File:Cartoon skip.png cartoon skip current
- 09:24, 22 January 2008 diff hist +85 Category:Plugins
- 09:23, 22 January 2008 diff hist +38 Plugins Tutorial
- 09:23, 22 January 2008 diff hist +180 N Category:Developers New page: == Welcome, PyMOL Developers/Power Users == This section will contain the information for PyMOL developers wishing to extend PyMOL, or integrate it into other programs. More soon. current
- 09:22, 22 January 2008 diff hist +157 N Extensions New page: == Extensions == Coming soon, information for Developers on how to extend PyMOL. == See Also == Plugins_Tutorial Extensions
- 09:21, 22 January 2008 diff hist +42 Plugins Tutorial
- 16:53, 17 January 2008 diff hist -18 m Ellipsoids current
- 18:15, 16 January 2008 diff hist +368 m Surface →Tips
- 09:38, 14 January 2008 diff hist +216 Cealign plugin →Requirements
- 09:23, 14 January 2008 diff hist +154 Cealign plugin Added info. for installing CEAlign into the precompiled binary's dir.
- 09:41, 7 January 2008 diff hist +31 N User:Syshiran New page: Idiot spammer. Access revoked. current
- 14:03, 26 December 2007 diff hist +197 Talk:Ellipsoids Ellipsoids current
- 10:52, 21 December 2007 diff hist +643 Windows Install
- 15:07, 20 December 2007 diff hist -23 Fuse
- 13:33, 20 December 2007 diff hist +1,393 N About New page: == About PyMOL == [http://pymol.sf.net PyMOL] is an open-source molecular visualization program functioning on a variety of computer platforms (Windows, Mac, Linux/UNIX, etc). The softwa...
- 13:22, 20 December 2007 diff hist +157 Main Page
- 13:33, 12 December 2007 diff hist +17 m Main Page
- 19:22, 11 December 2007 diff hist -13 m Main Page
- 19:15, 11 December 2007 diff hist +375 m Main Page
- 19:07, 11 December 2007 diff hist +543 N Ellipsoids New page: == Overview == The '''Ellipsoids''' representation draws the anisotropic (ANISOU fields in the PDB record) thermal ellipsoids from high resolution structures. It is the newest addition t...
- 19:03, 11 December 2007 diff hist +17 N File:Ell2.png Simple ellipsoid. current
- 19:02, 11 December 2007 diff hist +32 N File:Ell1.png Simple ellipsoid representation. current
- 14:24, 10 December 2007 diff hist +60 m Main Page
- 12:29, 10 December 2007 diff hist +39 Category:FAQ →Overview
- 12:17, 10 December 2007 diff hist +211 Talk:Main Page
- 02:42, 10 December 2007 diff hist +57 Main Page
- 21:04, 9 December 2007 diff hist +663 Nm Sphere mode New page: == Overview == The '''sphere_mode''' setting controls how PyMOL draws spheres in the OpenGL interface. It does not affect rendering, using ray. Sphere mode set to '''5''', which look...
- 21:03, 9 December 2007 diff hist -40 Settings
- 21:02, 9 December 2007 diff hist 0 N File:Sphere mode 5.png current
- 21:01, 9 December 2007 diff hist 0 N File:Sphere mode 4.png current
- 21:01, 9 December 2007 diff hist 0 N File:Sphere mode 3.png current
- 21:01, 9 December 2007 diff hist 0 N File:Sphere mode 2.png current
- 21:01, 9 December 2007 diff hist 0 N File:Sphere mode 1.png current
- 21:01, 9 December 2007 diff hist 0 N File:Sphere mode off.png current
- 20:56, 9 December 2007 diff hist +548 N Stick color New page: == Overview == ''Stick_color'' controls the color of sticks for a selection or object. For example, one could color all atoms by their element as transparent spheres, but for a nice under...
- 20:56, 9 December 2007 diff hist 0 N File:Stick color.png current