Re: [PyMOL] Movie to Powerpoint
In my experience, animated gifs run beautifully in web browsers on all platforms and in openoffice under linux. They are usually awful in powerpoint on any platform. (And to be honest I don't really notice the lack of color depth.) Alternatively, MPEGs tend to run well in powerpoint, but are troublesome under linux. One can convert between MPEGs and gifanims using a complicated combination of imagemagic and mencoder/MPEG. Cheers, Charlie Noinaj wrote: My vote is against animated-GIFs. I have experienced problems with animated GIFs in the past where they seem to run fine on my computer, then not work properly (very slow) on a laptop during a presentation, etc. Could be that I am setting them up wrong, but for this reason, I avoid animated-GIFs unless for websites and such. Hope this helps. Best of Luck! cheers, nick - Original Message - From: "Grégori Gerebtzoff" To: "'Karsten Seidel'" ; Sent: Friday, July 07, 2006 2:28 AM Subject: Re: [PyMOL] Movie to Powerpoint The problem with animated gif is the color limitation to 254 + one transparent colors, whereas PyMOL generated png's have millions of colors + alpha channel... -Original Message- From: Karsten Seidel [mailto:k...@nmr.mpibpc.mpg.de] Sent: jeudi, 6. juillet 2006 18:15 To: pymol-users@lists.sourceforge.net Subject: Re: [PyMOL] Movie to Powerpoint Hi there, first of all, let me say hello to all list subscribers, as I'm new here. I've been evaluating PyMOL for a couple of months now, coming from Molmol. Chiradip, one option next to creating an MPEG file is to make an animated GIF. Unfortunately, I don't know a free program under Windows to do this job, but you might want to look for it on the web, there must be some. I created a GIF from a set of PyMOL pictures using GraphicConverter on a Mac, a program that came free with OS X (as of 10.3 or 10.4, at least). The file "runs" fine in Powerpoint under Windows, and one doesn't have problems with missing codecs when presenting the slides on an old computer. Just make sure the file is not too large, it may not run as smooth as an .avi on an old box (which implies that this may not be the most elegant solution to the problem, consider it a quick workaround). Karsten. chiradip chatterjee wrote: Hi Friends I am a new Windows pymol user. I made a movie in Pymol and saved the 120 ray traced *.png frames. Now I want to convert the *.png files to MPEG files and then directly convert/run the movie in the Powerpoint presentation. can anyone please help me in this regard Thanks Chiradip ___ The all-new Yahoo! Mail goes wherever you go - free your email address from your Internet provider. http://uk.docs.yahoo.com/nowyoucan.html Using Tomcat but need to do more? Need to support web services, security? Get stuff done quickly with pre-integrated technology to make your job easier Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 ___ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users -- Karsten Seidel Max-Planck-Institute for biophysical Chemistry Department of NMR-based Structural Biology (NMR II) Am Fassberg 11 D-37077 Goettingen Phone/Fax: ++49-551-201-2213/2202 Email: k...@nmr.mpibpc.mpg.de http://www.mpibpc.gwdg.de/abteilungen/030/baldus/ Using Tomcat but need to do more? Need to support web services, security? Get stuff done quickly with pre-integrated technology to make your job easier Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 ___ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users Using Tomcat but need to do more? Need to support web services, security? Get stuff done quickly with pre-integrated technology to make your job easier Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 ___ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users -- Dr Charles S. BondUniversity of Dundee Tel: +44-1382-388325 Honorary Lecturer Dow St, Dundee Fax: +44-1382-345764 BBSRC David Phillips Fellow DD1 5EH, Scotland c.s.b...@dundee.ac.uk School of Life Sciences http://stein.bioch.dundee.ac.uk/~charlie
Re: [PyMOL] Movie to Powerpoint
My vote is against animated-GIFs. I have experienced problems with animated GIFs in the past where they seem to run fine on my computer, then not work properly (very slow) on a laptop during a presentation, etc. Could be that I am setting them up wrong, but for this reason, I avoid animated-GIFs unless for websites and such. Hope this helps. Best of Luck! cheers, nick - Original Message - From: "Grégori Gerebtzoff" To: "'Karsten Seidel'" ; Sent: Friday, July 07, 2006 2:28 AM Subject: Re: [PyMOL] Movie to Powerpoint The problem with animated gif is the color limitation to 254 + one transparent colors, whereas PyMOL generated png's have millions of colors + alpha channel... -Original Message- From: Karsten Seidel [mailto:k...@nmr.mpibpc.mpg.de] Sent: jeudi, 6. juillet 2006 18:15 To: pymol-users@lists.sourceforge.net Subject: Re: [PyMOL] Movie to Powerpoint Hi there, first of all, let me say hello to all list subscribers, as I'm new here. I've been evaluating PyMOL for a couple of months now, coming from Molmol. Chiradip, one option next to creating an MPEG file is to make an animated GIF. Unfortunately, I don't know a free program under Windows to do this job, but you might want to look for it on the web, there must be some. I created a GIF from a set of PyMOL pictures using GraphicConverter on a Mac, a program that came free with OS X (as of 10.3 or 10.4, at least). The file "runs" fine in Powerpoint under Windows, and one doesn't have problems with missing codecs when presenting the slides on an old computer. Just make sure the file is not too large, it may not run as smooth as an .avi on an old box (which implies that this may not be the most elegant solution to the problem, consider it a quick workaround). Karsten. chiradip chatterjee wrote: Hi Friends I am a new Windows pymol user. I made a movie in Pymol and saved the 120 ray traced *.png frames. Now I want to convert the *.png files to MPEG files and then directly convert/run the movie in the Powerpoint presentation. can anyone please help me in this regard Thanks Chiradip ___ The all-new Yahoo! Mail goes wherever you go - free your email address from your Internet provider. http://uk.docs.yahoo.com/nowyoucan.html Using Tomcat but need to do more? Need to support web services, security? Get stuff done quickly with pre-integrated technology to make your job easier Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 ___ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users -- Karsten Seidel Max-Planck-Institute for biophysical Chemistry Department of NMR-based Structural Biology (NMR II) Am Fassberg 11 D-37077 Goettingen Phone/Fax: ++49-551-201-2213/2202 Email: k...@nmr.mpibpc.mpg.de http://www.mpibpc.gwdg.de/abteilungen/030/baldus/ Using Tomcat but need to do more? Need to support web services, security? Get stuff done quickly with pre-integrated technology to make your job easier Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 ___ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users
Re: [PyMOL] Movie to Powerpoint
The problem with animated gif is the color limitation to 254 + one transparent colors, whereas PyMOL generated png's have millions of colors + alpha channel... -Original Message- From: Karsten Seidel [mailto:k...@nmr.mpibpc.mpg.de] Sent: jeudi, 6. juillet 2006 18:15 To: pymol-users@lists.sourceforge.net Subject: Re: [PyMOL] Movie to Powerpoint Hi there, first of all, let me say hello to all list subscribers, as I'm new here. I've been evaluating PyMOL for a couple of months now, coming from Molmol. Chiradip, one option next to creating an MPEG file is to make an animated GIF. Unfortunately, I don't know a free program under Windows to do this job, but you might want to look for it on the web, there must be some. I created a GIF from a set of PyMOL pictures using GraphicConverter on a Mac, a program that came free with OS X (as of 10.3 or 10.4, at least). The file "runs" fine in Powerpoint under Windows, and one doesn't have problems with missing codecs when presenting the slides on an old computer. Just make sure the file is not too large, it may not run as smooth as an .avi on an old box (which implies that this may not be the most elegant solution to the problem, consider it a quick workaround). Karsten. chiradip chatterjee wrote: > Hi Friends > I am a new Windows pymol user. > I made a movie in Pymol and saved the 120 ray traced > *.png frames. > Now I want to convert the *.png files to MPEG files > and then directly convert/run the movie in the > Powerpoint presentation. > can anyone please help me in this regard > Thanks > Chiradip > > > > > ___ > The all-new Yahoo! Mail goes wherever you go - free your email address from your Internet provider. http://uk.docs.yahoo.com/nowyoucan.html > > Using Tomcat but need to do more? Need to support web services, security? > Get stuff done quickly with pre-integrated technology to make your job easier > Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo > http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 > ___ > PyMOL-users mailing list > PyMOL-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/pymol-users > -- Karsten Seidel Max-Planck-Institute for biophysical Chemistry Department of NMR-based Structural Biology (NMR II) Am Fassberg 11 D-37077 Goettingen Phone/Fax: ++49-551-201-2213/2202 Email: k...@nmr.mpibpc.mpg.de http://www.mpibpc.gwdg.de/abteilungen/030/baldus/
Re: [PyMOL] Movie to Powerpoint
Hi there, first of all, let me say hello to all list subscribers, as I'm new here. I've been evaluating PyMOL for a couple of months now, coming from Molmol. Chiradip, one option next to creating an MPEG file is to make an animated GIF. Unfortunately, I don't know a free program under Windows to do this job, but you might want to look for it on the web, there must be some. I created a GIF from a set of PyMOL pictures using GraphicConverter on a Mac, a program that came free with OS X (as of 10.3 or 10.4, at least). The file "runs" fine in Powerpoint under Windows, and one doesn't have problems with missing codecs when presenting the slides on an old computer. Just make sure the file is not too large, it may not run as smooth as an .avi on an old box (which implies that this may not be the most elegant solution to the problem, consider it a quick workaround). Karsten. chiradip chatterjee wrote: Hi Friends I am a new Windows pymol user. I made a movie in Pymol and saved the 120 ray traced *.png frames. Now I want to convert the *.png files to MPEG files and then directly convert/run the movie in the Powerpoint presentation. can anyone please help me in this regard Thanks Chiradip ___ The all-new Yahoo! Mail goes wherever you go - free your email address from your Internet provider. http://uk.docs.yahoo.com/nowyoucan.html Using Tomcat but need to do more? Need to support web services, security? Get stuff done quickly with pre-integrated technology to make your job easier Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 ___ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users -- Karsten Seidel Max-Planck-Institute for biophysical Chemistry Department of NMR-based Structural Biology (NMR II) Am Fassberg 11 D-37077 Goettingen Phone/Fax: ++49-551-201-2213/2202 Email: k...@nmr.mpibpc.mpg.de http://www.mpibpc.gwdg.de/abteilungen/030/baldus/
Re: [PyMOL] Movie to Powerpoint
For this purpose I've been using mencoder (http://www.mplayerhq.hu) which is open source and gives access to a wide range of codecs (mpeg-1, mpeg-2, mpeg-4 (divx), realmedia, mov, avi, asf, flash etc). Here is the batch file I used to encode a video in two-pass divx encoding (the frames were in the same folder as the batch (.bat) file, and were called vid001.png, vid002.png, ...). The output video had a very nice quality and a decent size. c:\mplayer\mencoder mf://*.png -mf w=960:h=720:fps=15:type=png -ovc lavc -lavcopts vcodec=mpeg4:vpass=1 -oac copy -o output.avi del output3.avi c:\mplayer\mencoder mf://*.png -mf w=960:h=720:fps=15:type=png -ovc lavc -lavcopts vcodec=mpeg4:vpass=2 -oac copy -o output.avi However this has been done with version 1.0pre6 (relased on the December 23, 2004), and version 1.0pre8 has been released recently (June 11, 2006) so some parameters might have been added/modified. Hope this helps! Cheers, Greg -Original Message- From: chiradip chatterjee [mailto:chiradi...@yahoo.co.uk] Sent: mercredi, 5. juillet 2006 22:15 To: pymol-users@lists.sourceforge.net Subject: [PyMOL] Movie to Powerpoint Hi Friends I am a new Windows pymol user. I made a movie in Pymol and saved the 120 ray traced *.png frames. Now I want to convert the *.png files to MPEG files and then directly convert/run the movie in the Powerpoint presentation. can anyone please help me in this regard Thanks Chiradip ___ The all-new Yahoo! Mail goes wherever you go - free your email address from your Internet provider. http://uk.docs.yahoo.com/nowyoucan.html
Re: [PyMOL] Movie to Powerpoint
There some cool free tools out there in cyberspace, one of them is Slide Show Movie Maker by Joern Thiemann http://www.joern-thiemann.de/tools/SSMM/index.html Although it is not meant as a live movie maker but for slide shows, it just a matter of frames pr. second, right ;-) First you need to convert your png's to jpg to SSMM to read it. You can do this with png2jpg http://www.geocities.com/aroach.geo/png2jpg/index.html One great thing about SSMM is the ability to insert text boxes anywhere in the movie and you can pause on a single image for several frames to focus on interesting features. Alternatively, you can buy QuickTime Pro, and convert png's directly into movies + you get the super nice H.264 encoder. For the sake of your audience, please consider using DivX or Cinepak codecs instead of MPEG, they look much better! Jesper chiradip chatterjee wrote: Hi Friends I am a new Windows pymol user. I made a movie in Pymol and saved the 120 ray traced *.png frames. Now I want to convert the *.png files to MPEG files and then directly convert/run the movie in the Powerpoint presentation. can anyone please help me in this regard Thanks Chiradip ___ The all-new Yahoo! Mail goes wherever you go - free your email address from your Internet provider. http://uk.docs.yahoo.com/nowyoucan.html Using Tomcat but need to do more? Need to support web services, security? Get stuff done quickly with pre-integrated technology to make your job easier Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 ___ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users
Re: [PyMOL] Movie to Powerpoint
Video mach seems to work chiradip chatterjee wrote: Hi Friends I am a new Windows pymol user. I made a movie in Pymol and saved the 120 ray traced *.png frames. Now I want to convert the *.png files to MPEG files and then directly convert/run the movie in the Powerpoint presentation. can anyone please help me in this regard Thanks Chiradip ___ The all-new Yahoo! Mail goes wherever you go - free your email address from your Internet provider. http://uk.docs.yahoo.com/nowyoucan.html Using Tomcat but need to do more? Need to support web services, security? Get stuff done quickly with pre-integrated technology to make your job easier Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 ___ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users -- Joel Tyndall, PhD Lecturer National School of Pharmacy University of Otago PO Box 913 Dunedin New Zealand Pukenga Te Kura Taiwhanga Putaiao Te Whare Wananga o Otago Pouaka Poutapeta 913 Otepoti Aotearoa Ph / Waea +64 3 4797293 Fax / Waeawhakaahua +64 3 4797034
Re: [PyMOL] Movie to Powerpoint
Best one I have found is mpeg_encoder from Berkeley, free but runs on linux Also Adobe premiere but $$$ Cheers, JTM "We can be sure that if a detailed understanding of the molecular basis of chemo-therapeutic activity were to be obtained, the advance of medicine would be greatly accelerated." Linus Pauling, Nobel Laureate 1954 "...everything that living things do can be understood in terms of the jigglings and wigglings of atoms." Richard Feynman, Nobel Laureate 1965 * Jason Thomas Maynes, MD/PhD Department of Biochemistry Faculty of Medicine University of Alberta ja...@biochem.ualberta.ca * - Original Message - From: chiradip chatterjee Date: Wednesday, July 5, 2006 3:14 pm Subject: [PyMOL] Movie to Powerpoint > Hi Friends > I am a new Windows pymol user. > I made a movie in Pymol and saved the 120 ray traced > *.png frames. > Now I want to convert the *.png files to MPEG files > and then directly convert/run the movie in the > Powerpoint presentation. > can anyone please help me in this regard > Thanks > Chiradip > > > > > ___ > The all-new Yahoo! Mail goes wherever you go - free your email > address from your Internet provider. > http://uk.docs.yahoo.com/nowyoucan.html > Using Tomcat but need to do more? Need to support web services, > security?Get stuff done quickly with pre-integrated technology to > make your job easier > Download IBM WebSphere Application Server v.1.0.1 based on Apache > Geronimohttp://sel.as- > us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642___ > PyMOL-users mailing list > PyMOL-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/pymol-users >
