VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Thu Jan 12 2006 - 10:58:22 CST

I forgot to add, on Windows you don't use NetPBM at all, instead you'll
need to use the VideoMach tool. Click the help menu item on the movie
plugin and the web page you're taken to mentions that stuff.

  John

On Thu, Jan 12, 2006 at 10:57:11AM -0600, John Stone wrote:
>
> Hi,
> There's nothing wrong with the par file that I can see,
> this is undoubtably some new problem with the latest NetPBM distribution.
> In any case, if the par file was bad, it clearly should not crash! :-)
> I'd suggest filing a bug on their sourceforge page, or else compile
> the latest NetPBM from source and see if the fresh build still
> has the problem.
>
> John Stone
> vmd_at_ks.uiuc.edu
>
> On Thu, Jan 12, 2006 at 06:42:38PM +0200, Dan White wrote:
> > Hi John,
> >
> > when i run ppmtompeg
> > with the .par file as as the command line argument
> > I get a segmentation fault
> >
> > I have netpbm-10.31-1.FC3
> > which looks like it is very new, from this month infact.....
> > so... i wonder if this new netpbm does not work with the par files that
> > VMD 1.8.3 is making,
> > here is the par file, so you can see if there is anything weird about
> > it.
> >
> > PATTERN IBBPBBPBBPBBPBB
> > FORCE_ENCODE_LAST_FRAME
> > OUTPUT /home/dan/Desktop/harrytraj/A060108_110.mpg
> > INPUT_DIR /home/dan/Desktop/harrytraj
> > INPUT
> > A060108_110.*.ppm [0000-0118]
> > END_INPUT
> > BASE_FILE_FORMAT PPM
> > INPUT_CONVERT *
> > GOP_SIZE 15
> > SLICES_PER_FRAME 1
> > PIXEL HALF
> > RANGE 32
> > PSEARCH_ALG LOGARITHMIC
> > BSEARCH_ALG CROSS2
> > IQSCALE 8
> > PQSCALE 10
> > BQSCALE 25
> > REFERENCE_FRAME DECODED
> >
> > do you think it is ppmtompeg that isnt working as it should,
> > or VMD that isnt making a par file that ppmtompeg understands these
> > days..
> > or is it a bad .par file?
> >
> > should I downgrade netpbm to a working version?
> > do you know which one?
> >
> > by the way, in a normal windows installation,
> > will the movie maker be there?
> > does it require some windows installation of netpbm?
> >
> > cheers
> >
> > Dan
> >
> >
> >
> > On Jan 12, 2006, at 5:57 PM, John Stone wrote:
> >
> > >
> > >Dan,
> > > The VMD movie plugin usese the 'ppmtompeg' binaries that you have
> > >installed on your system, so that's the first place I'd look.
> > >I've seen several revs of NetPBM that had partially broken builds
> > >of ppmtompeg, so you'll probably be in good shape if you get that
> > >fixed.
> > >One way you can determine for sure if this is ppmtompeg is to invoke
> > >it by hand at the command line, using the parameter file that VMD
> > >creates in the movie working directory, named filename.par
> > >Give that a shot and see if that's what the problem is.
> > >
> > > John Stone
> > > vmd_at_ks.uiuc.edu
> > >
> > >On Thu, Jan 12, 2006 at 04:13:42PM +0200, Dan White wrote:
> > >>Hi VMD users,
> > >>
> > >>I am trying to make a movie with VMD using the VMD movie generator
> > >>extension that comes with vmd 1.8.3 on 32 bit linux (FC3)
> > >>
> > >>the ppm files are makde jsut fine, but when it makes the mpeg1 file,
> > >>the file is empty, 0kb,
> > >>
> > >>and there are no error messages anywhere in the VMD console
> > >>
> > >>anyone got any clues?
> > >>
> > >>does it use its own ppmtompeg binary, or the one installed on the
> > >>system,
> > >>where should I start trouble shooting?
> > >>
> > >>cheers
> > >>
> > >>Dan
> > >>
> > >>
> > >>
> > >>Dr. Daniel James White BSc. (Hons.) PhD
> > >>Bioimaging Coordinator
> > >>Nanoscience Centre and Department of Biological and Environmental
> > >>Sciences
> > >>Division of Molecular Recognition
> > >>Ambiotica C242
> > >>PO Box 35
> > >>University of Jyväskylä
> > >>Jyväskylä
> > >>FIN 40014
> > >>Finland
> > >>
> > >>+358 14 260 4183 (work)
> > >>+358 468102840 (mobile)
> > >>http://www.bioimagexd.org
> > >>http://www.chalkie.org.uk
> > >>dan_at_chalkie.org.uk
> > >>white_at_cc.jyu.fi
> > >>
> > >>
> > >
> > >--
> > >NIH Resource for Macromolecular Modeling and Bioinformatics
> > >Beckman Institute for Advanced Science and Technology
> > >University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
> > >Email: johns_at_ks.uiuc.edu Phone: 217-244-3349
> > > WWW: http://www.ks.uiuc.edu/~johns/ Fax: 217-244-6078
> >
> > Dr. Daniel James White BSc. (Hons.) PhD
> > Bioimaging Coordinator
> > Nanoscience Centre and Department of Biological and Environmental
> > Sciences
> > Division of Molecular Recognition
> > Ambiotica C242
> > PO Box 35
> > University of Jyväskylä
> > Jyväskylä
> > FIN 40014
> > Finland
> >
> > +358 14 260 4183 (work)
> > +358 468102840 (mobile)
> > http://www.bioimagexd.org
> > http://www.chalkie.org.uk
> > dan_at_chalkie.org.uk
> > white_at_cc.jyu.fi
> >
> >
>
> --
> NIH Resource for Macromolecular Modeling and Bioinformatics
> Beckman Institute for Advanced Science and Technology
> University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
> Email: johns_at_ks.uiuc.edu Phone: 217-244-3349
> WWW: http://www.ks.uiuc.edu/~johns/ Fax: 217-244-6078 

-- 
NIH Resource for Macromolecular Modeling and Bioinformatics
Beckman Institute for Advanced Science and Technology
University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
Email: johns_at_ks.uiuc.edu                 Phone: 217-244-3349
  WWW: http://www.ks.uiuc.edu/~johns/      Fax: 217-244-6078