Re: [PyMOL] Movie to export
What codec do I need to install?? MEncoder 1.0rc4-4.5.2 (C) 2000-2010 MPlayer Team Option x264encopts: Unknown suboption nodct_decimat success: format: 16 data: 0x0 - 0x0 MF file format detected. [mf] search expr: *.png [mf] number of files: 537 (4296) [demux_mf] file type was not set! trying 'type=png'... VIDEO: [MPNG] 0x0 24bpp 25.000 fps0.0 kbps ( 0.0 kbyte/s) [V] filefmt:16 fourcc:0x474E504D size:0x0 fps:25.000 ftime:=0.0400 Opening video filter: [expand osd=1] Expand: -1 x -1, -1 ; -1, osd: 1, aspect: 0.00, round: 1 == Opening video decoder: [ffmpeg] FFmpeg's libavcodec codec family Selected video codec: [ffpng] vfm: ffmpeg (FFmpeg PNG) == Could not find matching colorspace - retrying with -vf scale... Opening video filter: [scale] Movie-Aspect is undefined - no prescaling applied. [swscaler @ 0x7f2555cc0620]BICUBIC scaler, from bgra to yuv420p using MMX2 FATAL: Cannot initialize video driver. Movie-Aspect is undefined - no prescaling applied. FATAL: Cannot initialize video driver. Exiting... 2011/11/9 Marius Retegan marius.s.rete...@gmail.com On a Linux system you can use the following commands to stick them all together mencoder mf://*.png -mf fps=25 -ovc x264 -x264encopts bitrate=3000:threads=auto:frameref=8:bframes=0:nob_adapt:direct_pred=auto:subq=7:mixed_refs:nodct_decimat:no_psnr:me=umh:keyint=25 -ofps 25 -nosound -noskip -of rawvideo -o movieLQ.264 This will create a x264 compressed file which you will have to put in a mp4 container using the following command. You can modify the bitrate which is now set to 3000 and the framerate 25 fps. MP4Box -fps 25 -add movieLQ.264 movieLQ.mp4 Best regards, Marius -- Département de Chimie Moléculaire Université Joseph Fourier 301 Rue de la Chimie BP 53, 38041 Grenoble Cedex 9, France Tel +33 (0) 4 76 63 44 03 GnuPG http://db.tt/rr7Hd0Y 2011/11/8 Jason Vertrees jason.vertr...@schrodinger.com: Hi Troels, One benefit of the Incentive version of PyMOL is the Files Save Movie as ... MPEG feature. If you don't have that or you want to use a different compressor that's cool. In the past I had great luck with mencoder (http://www.pymolwiki.org/index.php/Making_Movies)-- but I think everyone's using VLC (http://www.videolan.org/) or ffmpeg (http://ffmpeg.org/) now. If the PyMOLWiki's out of date, please feel free to update it. Cheers, -- Jason 2011/11/8 Troels Emtekær Linnet tlin...@gmail.com: Hi. I have made a nice little movie in Pymol. 1500 frames. So now I am wondering what is the best method to export? At the moment I do export to .png with ray tracing each image. set ray_trace_frames = 1 That takes a long time. And what program should I use to pack them together? The easy wasy? Can it be done faster with the MPEG method? Best Troels Troels Emtekær Linnet Slotsvej 2 4300 Holbæk Mobil: +45 60210234 -- RSA(R) Conference 2012 Save $700 by Nov 18 Register now http://p.sf.net/sfu/rsa-sfdev2dev1 ___ 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 PyMOL Product Manager Schrodinger, LLC (e) jason.vertr...@schrodinger.com (o) +1 (603) 374-7120 -- RSA(R) Conference 2012 Save $700 by Nov 18 Register now http://p.sf.net/sfu/rsa-sfdev2dev1 ___ 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 -- RSA(R) Conference 2012 Save $700 by Nov 18 Register now http://p.sf.net/sfu/rsa-sfdev2dev1___ 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] Movie to export
I used this a long time ago, but after googling for the error from bgra to yuv420p I guess that is a problem with the color space conversion that memcoder tries to enforce by default. Maybe you could try imposing the color space by adding -vf format=bgra, but I think that the video codec is not going to be happy about that. Try looking around for other options... Marius 2011/11/9 Troels Emtekær Linnet tlin...@gmail.com: What codec do I need to install?? MEncoder 1.0rc4-4.5.2 (C) 2000-2010 MPlayer Team Option x264encopts: Unknown suboption nodct_decimat success: format: 16 data: 0x0 - 0x0 MF file format detected. [mf] search expr: *.png [mf] number of files: 537 (4296) [demux_mf] file type was not set! trying 'type=png'... VIDEO: [MPNG] 0x0 24bpp 25.000 fps 0.0 kbps ( 0.0 kbyte/s) [V] filefmt:16 fourcc:0x474E504D size:0x0 fps:25.000 ftime:=0.0400 Opening video filter: [expand osd=1] Expand: -1 x -1, -1 ; -1, osd: 1, aspect: 0.00, round: 1 == Opening video decoder: [ffmpeg] FFmpeg's libavcodec codec family Selected video codec: [ffpng] vfm: ffmpeg (FFmpeg PNG) == Could not find matching colorspace - retrying with -vf scale... Opening video filter: [scale] Movie-Aspect is undefined - no prescaling applied. [swscaler @ 0x7f2555cc0620]BICUBIC scaler, from bgra to yuv420p using MMX2 FATAL: Cannot initialize video driver. Movie-Aspect is undefined - no prescaling applied. FATAL: Cannot initialize video driver. Exiting... 2011/11/9 Marius Retegan marius.s.rete...@gmail.com On a Linux system you can use the following commands to stick them all together mencoder mf://*.png -mf fps=25 -ovc x264 -x264encopts bitrate=3000:threads=auto:frameref=8:bframes=0:nob_adapt:direct_pred=auto:subq=7:mixed_refs:nodct_decimat:no_psnr:me=umh:keyint=25 -ofps 25 -nosound -noskip -of rawvideo -o movieLQ.264 This will create a x264 compressed file which you will have to put in a mp4 container using the following command. You can modify the bitrate which is now set to 3000 and the framerate 25 fps. MP4Box -fps 25 -add movieLQ.264 movieLQ.mp4 Best regards, Marius -- Département de Chimie Moléculaire Université Joseph Fourier 301 Rue de la Chimie BP 53, 38041 Grenoble Cedex 9, France Tel +33 (0) 4 76 63 44 03 GnuPG http://db.tt/rr7Hd0Y 2011/11/8 Jason Vertrees jason.vertr...@schrodinger.com: Hi Troels, One benefit of the Incentive version of PyMOL is the Files Save Movie as ... MPEG feature. If you don't have that or you want to use a different compressor that's cool. In the past I had great luck with mencoder (http://www.pymolwiki.org/index.php/Making_Movies)-- but I think everyone's using VLC (http://www.videolan.org/) or ffmpeg (http://ffmpeg.org/) now. If the PyMOLWiki's out of date, please feel free to update it. Cheers, -- Jason 2011/11/8 Troels Emtekær Linnet tlin...@gmail.com: Hi. I have made a nice little movie in Pymol. 1500 frames. So now I am wondering what is the best method to export? At the moment I do export to .png with ray tracing each image. set ray_trace_frames = 1 That takes a long time. And what program should I use to pack them together? The easy wasy? Can it be done faster with the MPEG method? Best Troels Troels Emtekær Linnet Slotsvej 2 4300 Holbæk Mobil: +45 60210234 -- RSA(R) Conference 2012 Save $700 by Nov 18 Register now http://p.sf.net/sfu/rsa-sfdev2dev1 ___ 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 PyMOL Product Manager Schrodinger, LLC (e) jason.vertr...@schrodinger.com (o) +1 (603) 374-7120 -- RSA(R) Conference 2012 Save $700 by Nov 18 Register now http://p.sf.net/sfu/rsa-sfdev2dev1 ___ 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 -- RSA(R) Conference 2012 Save $700 by Nov 18 Register now http://p.sf.net/sfu/rsa-sfdev2dev1 ___ 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] Movie to export
Hi, Quick time player 7 pro does a great job for me. Cheers Tim Am 11/8/11 9:54 PM, schrieb Troels Emtekær Linnet: Hi. I have made a nice little movie in Pymol. 1500 frames. So now I am wondering what is the best method to export? At the moment I do export to .png with ray tracing each image. set ray_trace_frames = 1 That takes a long time. And what program should I use to pack them together? The easy wasy? Can it be done faster with the MPEG method? Best Troels Troels Emtekær Linnet Slotsvej 2 4300 Holbæk Mobil: +45 60210234 -- RSA(R) Conference 2012 Save $700 by Nov 18 Register now http://p.sf.net/sfu/rsa-sfdev2dev1 ___ 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 -- RSA(R) Conference 2012 Save $700 by Nov 18 Register now http://p.sf.net/sfu/rsa-sfdev2dev1___ 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] Movie to export
have a look at this link: http://strucbio.biologie.uni-konstanz.de/ccp4wiki/index.php/Morph_with_Chimera disregard morph part. you can modify script to contain frames instead of states. i installed ffmpeg from repositories on ubuntu and don't remember any issues with kodecs. vitali On Wed, Nov 9, 2011 at 8:14 AM, Tim Schulte tim.schu...@ki.se wrote: ** Hi, Quick time player 7 pro does a great job for me. Cheers Tim Am 11/8/11 9:54 PM, schrieb Troels Emtekær Linnet: Hi. I have made a nice little movie in Pymol. 1500 frames. So now I am wondering what is the best method to export? At the moment I do export to .png with ray tracing each image. set ray_trace_frames = 1 That takes a long time. And what program should I use to pack them together? The easy wasy? Can it be done faster with the MPEG method? Best Troels Troels Emtekær Linnet Slotsvej 2 4300 Holbæk Mobil: +45 60210234 -- RSA(R) Conference 2012 Save $700 by Nov 18 Register nowhttp://p.sf.net/sfu/rsa-sfdev2dev1 ___ 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 -- RSA(R) Conference 2012 Save $700 by Nov 18 Register now http://p.sf.net/sfu/rsa-sfdev2dev1 ___ 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 -- RSA(R) Conference 2012 Save $700 by Nov 18 Register now http://p.sf.net/sfu/rsa-sfdev2dev1___ 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] Movie to export
one more thing: ffmpeg script at that link didn't work for me so i had to modify it like that ffmpeg -f image2 -qscale 5 -r 24 -b 9600 -i image%d.png movie.mpg On Wed, Nov 9, 2011 at 11:22 PM, Vitali Stanevich stanev...@wisc.eduwrote: have a look at this link: http://strucbio.biologie.uni-konstanz.de/ccp4wiki/index.php/Morph_with_Chimera disregard morph part. you can modify script to contain frames instead of states. i installed ffmpeg from repositories on ubuntu and don't remember any issues with kodecs. vitali On Wed, Nov 9, 2011 at 8:14 AM, Tim Schulte tim.schu...@ki.se wrote: ** Hi, Quick time player 7 pro does a great job for me. Cheers Tim Am 11/8/11 9:54 PM, schrieb Troels Emtekær Linnet: Hi. I have made a nice little movie in Pymol. 1500 frames. So now I am wondering what is the best method to export? At the moment I do export to .png with ray tracing each image. set ray_trace_frames = 1 That takes a long time. And what program should I use to pack them together? The easy wasy? Can it be done faster with the MPEG method? Best Troels Troels Emtekær Linnet Slotsvej 2 4300 Holbæk Mobil: +45 60210234 -- RSA(R) Conference 2012 Save $700 by Nov 18 Register nowhttp://p.sf.net/sfu/rsa-sfdev2dev1 ___ 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 -- RSA(R) Conference 2012 Save $700 by Nov 18 Register now http://p.sf.net/sfu/rsa-sfdev2dev1 ___ 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 -- RSA(R) Conference 2012 Save $700 by Nov 18 Register now http://p.sf.net/sfu/rsa-sfdev2dev1___ 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] Movie to export
Hi. I have made a nice little movie in Pymol. 1500 frames. So now I am wondering what is the best method to export? At the moment I do export to .png with ray tracing each image. set ray_trace_frames = 1 That takes a long time. And what program should I use to pack them together? The easy wasy? Can it be done faster with the MPEG method? Best Troels Troels Emtekær Linnet Slotsvej 2 4300 Holbæk Mobil: +45 60210234 -- RSA(R) Conference 2012 Save $700 by Nov 18 Register now http://p.sf.net/sfu/rsa-sfdev2dev1___ 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] Movie to export
Hi Troels, One benefit of the Incentive version of PyMOL is the Files Save Movie as ... MPEG feature. If you don't have that or you want to use a different compressor that's cool. In the past I had great luck with mencoder (http://www.pymolwiki.org/index.php/Making_Movies)-- but I think everyone's using VLC (http://www.videolan.org/) or ffmpeg (http://ffmpeg.org/) now. If the PyMOLWiki's out of date, please feel free to update it. Cheers, -- Jason 2011/11/8 Troels Emtekær Linnet tlin...@gmail.com: Hi. I have made a nice little movie in Pymol. 1500 frames. So now I am wondering what is the best method to export? At the moment I do export to .png with ray tracing each image. set ray_trace_frames = 1 That takes a long time. And what program should I use to pack them together? The easy wasy? Can it be done faster with the MPEG method? Best Troels Troels Emtekær Linnet Slotsvej 2 4300 Holbæk Mobil: +45 60210234 -- RSA(R) Conference 2012 Save $700 by Nov 18 Register now http://p.sf.net/sfu/rsa-sfdev2dev1 ___ 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 PyMOL Product Manager Schrodinger, LLC (e) jason.vertr...@schrodinger.com (o) +1 (603) 374-7120 -- RSA(R) Conference 2012 Save $700 by Nov 18 Register now http://p.sf.net/sfu/rsa-sfdev2dev1 ___ 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
