VMD-L Mailing List

From: Axel Kohlmeyer (akohlmey_at_gmail.com)
Date: Tue Mar 13 2018 - 16:32:37 CDT

On Tue, Mar 13, 2018 at 3:29 PM, John Stone <johns_at_ks.uiuc.edu> wrote:

> Hi,
> While I didn't do it yet, this is on my short list of things
> going into VMD 1.9.4, because zlib is a dependency for libpng,
> and I would like to enable (and thus have to redistribute) libpng
> with VMD, at least on linux perhaps on all platforms, by default.
>

​hi john,

we probably should figure out a way to have two different plugin binaries
for this: one with compression enabled and without.
adding zlib support, significantly slows down uncompressed reading, which
is why it is an add-on define that is disabled by default.

axel.​

> I'm currently swamped so I wasn't planning to work on this for a
> couple of weeks, but if you can wait a bit longer, I hope to have
> this resolved in the near future, and I will definitely have
> a look at the LAMMPS plugin when I'm adding libz to the build/redistrib
> directories.
>
> Best,
> John Stone
> vmd_at_ks.uiuc.edu
>
> On Tue, Mar 13, 2018 at 12:19:48PM -0700, Christian Leitold wrote:
> > Hello,
> > I recently wanted to read gzippped LAMMPS trajectories with VMD, and
> it
> > turns out this is possible when the right option is defined. In
> > particular, lammpsplugin.c looks for the preprocessor variable
> _USE_ZLIB.
> > This was also mentioned for a similar case in post a few weeks ago:
> > [1]http://www.ks.uiuc.edu/Research/vmd/mailing_list/vmd-l/28540.html
> > My question is rather basic: HOW exactly do I activate the
> preprocessor
> > macro in practice? When I just add "#define _USE_ZLIB" it
> > in lammpsplugin.c, the compilation fails because apparently it cannot
> > find the zlib functions:
> > lammpsplugin.c:(.text+0x2e3d): undefined reference to `gzgets'
> > My guess is that I will need to add a "-lz" linker option at some
> point,
> > but I failed to find out where exactly.
> > Thanks,
> > Christian
> >
> > References
> >
> > Visible links
> > 1. http://www.ks.uiuc.edu/Research/vmd/mailing_list/vmd-l/28540.html
>
> --
> NIH Center for Macromolecular Modeling and Bioinformatics
> Beckman Institute for Advanced Science and Technology
> University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
> http://www.ks.uiuc.edu/~johns/ Phone: 217-244-3349
> http://www.ks.uiuc.edu/Research/vmd/
>
> 

-- 
Dr. Axel Kohlmeyer  akohlmey_at_gmail.com  http://goo.gl/1wk0
College of Science & Technology, Temple University, Philadelphia PA, USA
International Centre for Theoretical Physics, Trieste. Italy.