[PyMOL] Yaw, Pitch and Roll of CGO
Hello I've made a cone CGO (something like a pointer) and now I need to make a rotation of the cone. I have got yaw, pitch and roll angle values, but when I do 'rotate' command it rotates about axis of the global coordinate system. My question is, how to make a rotation of the CGO about axis that is NOT of the global pymol coordinate system but goes through the CGO itself? I hope it's clear what I mean ;) Thank you Pawel -- Managing the Performance of Cloud-Based Applications Take advantage of what the Cloud has to offer - Avoid Common Pitfalls. Read the Whitepaper. http://pubads.g.doubleclick.net/gampad/clk?id=121051231&iu=/4140/ostg.clktrk___ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
Re: [PyMOL] ERROR: CGOOptimizeScreenTexturesAndPolygons() glGenBuffers returns err=1282
Jason, My drivers are newest Nvidia 331.82 from http://www.nvidia.pl/download/driverResults.aspx/70559. I'm not sure if the problem is on my site or no. Maybe my pymol distribution is badly built? What else can I do to get rid of that bug? Cheers, Pawel 2013/11/24 Jason Vertrees : > Hi Pawel, > > I suggest making sure that your video drivers are up to date at all times > when using software like PyMOL. Mobile video cards notoriously badly > implement the OpenGL spec. > > If that's a bug in our part, we'll try to track it down. > > Cheers, > > -- Jason > > > On Sun, Nov 24, 2013 at 3:42 PM, Павел Томашевский > wrote: >> >> 2013/11/24 Jason Vertrees : >> > Hi, >> Hi Jason >> >> > Is there any chance you can send me your input file(s)? Also, please let >> > me >> > know what computer, video card, and architecture (32-bit/64-bit) you're >> > running on. >> >> So basically this problem occurs every time I start pymol, even >> without loading any input files. >> My computer is Dell Latitude E6400, running Windows 7 64-bits, I have >> Nvidia Quadro NVS160M. >> I've installed newest drivers a few days ago, but the problem still >> exists. >> >> If it matters... I've obtained PyMol executables (already compiled) >> from >> http://www.lfd.uci.edu/~gohlke/pythonlibs/3msnvi49/pymol-1.6.0.0.win-amd64-py2.7.exe. >> Executable comes with integrated Python 2.7 distribution... >> >> >> > Cheers, >> > >> > -- Jason >> >> Cheers >> Pawel >> >> >> > >> > >> > On Sat, Nov 23, 2013 at 2:47 PM, Павел Томашевский >> > wrote: >> >> >> >> Hello >> >> I run PyMol 1.6.0 on windows 7 and I get this error: >> >> ERROR: CGOOptimizeScreenTexturesAndPolygons() glGenBuffers returns >> >> err=1282 >> >> or >> >> ERROR: CGOOptimizeToVBONotIndexed() glGenBuffers returns err=1282 >> >> >> >> over and over again. >> >> Is there any way to get rid of that? That's really annoying. >> >> >> >> crooveck >> >> >> >> >> >> >> >> -- >> >> Shape the Mobile Experience: Free Subscription >> >> Software experts and developers: Be at the forefront of tech >> >> innovation. >> >> Intel(R) Software Adrenaline delivers strategic insight and >> >> game-changing >> >> conversations that shape the rapidly evolving mobile landscape. Sign up >> >> now. >> >> >> >> >> >> http://pubads.g.doubleclick.net/gampad/clk?id=63431311&iu=/4140/ostg.clktrk >> >> ___ >> >> PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) >> >> Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users >> >> Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net >> > >> > >> > >> > >> > -- >> > Jason Vertrees, PhD >> > Director of Core Modeling Products >> > Schrödinger, Inc. >> > >> > (e) jason.vertr...@schrodinger.com >> > (o) +1 (603) 374-7120 > > > > > -- > Jason Vertrees, PhD > Director of Core Modeling Products > Schrödinger, Inc. > > (e) jason.vertr...@schrodinger.com > (o) +1 (603) 374-7120 -- Shape the Mobile Experience: Free Subscription Software experts and developers: Be at the forefront of tech innovation. Intel(R) Software Adrenaline delivers strategic insight and game-changing conversations that shape the rapidly evolving mobile landscape. Sign up now. http://pubads.g.doubleclick.net/gampad/clk?id=63431311&iu=/4140/ostg.clktrk ___ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
[PyMOL] CGO rotate vs quaternion
Hi all, Ok, so today I have to admit that I don't know what quaternions are but I will need to use them. I'm working on PyMOL and Sensable Phantom Omni haptic device integration using Virtual Reality Peripherial Network (VRPN). So far I have a nicely working plugin for PyMOL that can retreive X,Y,Z coordinates and vector of four quaternion values. My CGO pointer (cone) can smoothly move according to X,Y and Z changes. Now I need to do some rotations of the pointer. AFAIK 'rotate' function accepts only degree value of rotation around axis. My question is: is there any build in PyMOL function that accepts four quaternion values and do rotation (instead of degree for each axis)? If not: do you have any simple hint or math formulas for me :) to calculate angles for rotation of CGO out of four quaternion value? Cheers Pawel 'crooveck' Tomaszewski -- Shape the Mobile Experience: Free Subscription Software experts and developers: Be at the forefront of tech innovation. Intel(R) Software Adrenaline delivers strategic insight and game-changing conversations that shape the rapidly evolving mobile landscape. Sign up now. http://pubads.g.doubleclick.net/gampad/clk?id=63431311&iu=/4140/ostg.clktrk ___ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
Re: [PyMOL] ERROR: CGOOptimizeScreenTexturesAndPolygons() glGenBuffers returns err=1282
2013/11/24 Jason Vertrees : > Hi, Hi Jason > Is there any chance you can send me your input file(s)? Also, please let me > know what computer, video card, and architecture (32-bit/64-bit) you're > running on. So basically this problem occurs every time I start pymol, even without loading any input files. My computer is Dell Latitude E6400, running Windows 7 64-bits, I have Nvidia Quadro NVS160M. I've installed newest drivers a few days ago, but the problem still exists. If it matters... I've obtained PyMol executables (already compiled) from http://www.lfd.uci.edu/~gohlke/pythonlibs/3msnvi49/pymol-1.6.0.0.win-amd64-py2.7.exe. Executable comes with integrated Python 2.7 distribution... > Cheers, > > -- Jason Cheers Pawel > > > On Sat, Nov 23, 2013 at 2:47 PM, Павел Томашевский > wrote: >> >> Hello >> I run PyMol 1.6.0 on windows 7 and I get this error: >> ERROR: CGOOptimizeScreenTexturesAndPolygons() glGenBuffers returns >> err=1282 >> or >> ERROR: CGOOptimizeToVBONotIndexed() glGenBuffers returns err=1282 >> >> over and over again. >> Is there any way to get rid of that? That's really annoying. >> >> crooveck >> >> >> -- >> Shape the Mobile Experience: Free Subscription >> Software experts and developers: Be at the forefront of tech innovation. >> Intel(R) Software Adrenaline delivers strategic insight and game-changing >> conversations that shape the rapidly evolving mobile landscape. Sign up >> now. >> >> http://pubads.g.doubleclick.net/gampad/clk?id=63431311&iu=/4140/ostg.clktrk >> ___ >> PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) >> Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users >> Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > > > > > -- > Jason Vertrees, PhD > Director of Core Modeling Products > Schrödinger, Inc. > > (e) jason.vertr...@schrodinger.com > (o) +1 (603) 374-7120 -- Shape the Mobile Experience: Free Subscription Software experts and developers: Be at the forefront of tech innovation. Intel(R) Software Adrenaline delivers strategic insight and game-changing conversations that shape the rapidly evolving mobile landscape. Sign up now. http://pubads.g.doubleclick.net/gampad/clk?id=63431311&iu=/4140/ostg.clktrk ___ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
[PyMOL] ERROR: CGOOptimizeScreenTexturesAndPolygons() glGenBuffers returns err=1282
Hello I run PyMol 1.6.0 on windows 7 and I get this error: ERROR: CGOOptimizeScreenTexturesAndPolygons() glGenBuffers returns err=1282 or ERROR: CGOOptimizeToVBONotIndexed() glGenBuffers returns err=1282 over and over again. Is there any way to get rid of that? That's really annoying. crooveck -- Shape the Mobile Experience: Free Subscription Software experts and developers: Be at the forefront of tech innovation. Intel(R) Software Adrenaline delivers strategic insight and game-changing conversations that shape the rapidly evolving mobile landscape. Sign up now. http://pubads.g.doubleclick.net/gampad/clk?id=63431311&iu=/4140/ostg.clktrk ___ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
Re: [PyMOL] How to move/turn CGO
Thank you Thomas, translate and rotate works great, but I'm not sure what set_object_ttt function does. I'm also looking for a function that can set absolute coordinates of my cgo cone, not relative to current position like translate/rotate. Is there such a function? 2013/8/12 Thomas Holder > Hi Pawel, > > > Currently I'm working on some plugin for PyMOL and I need your help. > > I need to draw an object (CGO) and create some function that will move > > this object or simply change its coordinates. > > I've done my job with the first part, that is drawing a sphere on a > > screen using > > cmd.load_cgo(data, 'name') > > function, but how can I change its coordinates? > > You can use translate and rotate with the object argument. > > PyMOL> translate [10,0,0], object=yourcgo > PyMOL> rotate x, 20, object=yourcgo > > You can also use cmd.set_object_ttt, see the third example here: > http://pymolwiki.org/index.php/Axes > > > My second question is about the meaning of a parameters for CONE CGO, in > > some examples (http://www.pymolwiki.org/index.php/Axes) CONE gets about > > 16 params, but I didn't found any description of those. > > There is no proper documentation for those. Did you have a look at > pymol/examples/devel/cgo_axes.py, which has comments for all the CONE > parameters? > > > https://sourceforge.net/p/pymol/code/4038/tree/trunk/pymol/examples/devel/cgo_axes.py > > Cheers, > Thomas > > -- > Thomas Holder > PyMOL Developer > Schrödinger Contractor > > > -- > Get 100% visibility into Java/.NET code with AppDynamics Lite! > It's a free troubleshooting tool designed for production. > Get down to code-level detail for bottlenecks, with <2% overhead. > Download for free and get started troubleshooting in minutes. > http://pubads.g.doubleclick.net/gampad/clk?id=48897031&iu=/4140/ostg.clktrk > ___ > PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) > Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > -- Get 100% visibility into Java/.NET code with AppDynamics Lite! It's a free troubleshooting tool designed for production. Get down to code-level detail for bottlenecks, with <2% overhead. Download for free and get started troubleshooting in minutes. http://pubads.g.doubleclick.net/gampad/clk?id=48897031&iu=/4140/ostg.clktrk___ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
[PyMOL] How to move/turn CGO
Hello1 Currently I'm working on some plugin for PyMOL and I need your help. I need to draw an object (CGO) and create some function that will move this object or simply change its coordinates. I've done my job with the first part, that is drawing a sphere on a screen using cmd.load_cgo(data, 'name') function, but how can I change its coordinates? My second question is about the meaning of a parameters for CONE CGO, in some examples (http://www.pymolwiki.org/index.php/Axes) CONE gets about 16 params, but I didn't found any description of those. Thank you for your help Pawel Tomaszewski -- Get 100% visibility into Java/.NET code with AppDynamics Lite! It's a free troubleshooting tool designed for production. Get down to code-level detail for bottlenecks, with <2% overhead. Download for free and get started troubleshooting in minutes. http://pubads.g.doubleclick.net/gampad/clk?id=48897031&iu=/4140/ostg.clktrk___ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
[PyMOL] How to move/turn CGO
Hello Currently I'm working on some plugin for PyMOL and I need your help. I need to draw an object (CGO) and create some function that will move this object or simply change its coordinates. I've done my job with the first part, that is drawing a sphere on a screen using cmd.load_cgo(data, 'name') function, but how can I change its coordinates? My second question is about the meaning of a parameters for CONE CGO, in some examples (http://www.pymolwiki.org/index.php/Axes) CONE gets about 16 params, but I didn't found any description of those. Thank you for your help Pawel Tomaszewski -- Get 100% visibility into Java/.NET code with AppDynamics Lite! It's a free troubleshooting tool designed for production. Get down to code-level detail for bottlenecks, with <2% overhead. Download for free and get started troubleshooting in minutes. http://pubads.g.doubleclick.net/gampad/clk?id=48897031&iu=/4140/ostg.clktrk___ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
