Hi Daniel,
i have graphviz now, and I am seeing a function get_subset_graph_geometry. how am i supposed to use this? I would like to display subset with particles in them.
IMP.domino2.get_subset_graph_geometry(junct_tree) seems not doing enough/anything.
> Some recent changes that might be of interest > - a wrapper for the Bullet physics simulation system was added to > allow it to be used to optimize models. I recommend everyone take a > look at it as a possible a replacement for conjugate gradients in > certain contexts. It is not general purpose (it works best when > excluded volume and harmonics dominate), but it is very stable and > can get to a decent configuration from quite bad ones. We can add > support for rigid bodies if desired, but currently only XYZR > particles are optimized. An example is provided. > > - various bits of IMP should be faster (at least with fast builds), > including non-bonded lists. I added a section on speeding things up > in the introduction, http://salilab.org/imp/nightly/doc/html/introduction.html > . > > - modules can be selectively ignored when running scons by using > "disabledmodules=helper:restrainer:domino" (or some other list of > modules) on the command line or the config.py. This can make scons > run much faster when you are working on modifying one module since > it won't configure the listed modules. Be aware that modules that > require the disabled modules will also be disabled (and so ignored). > Also note that you can skip the scons dependency checks by doing, eg > fftw3="yes" and fftw3libs="fftw3". or create a fully specified > config file configuration file (by doing "scons config.py"). > > > As a note, if you are not doing out of source builds, you probably > should be as it makes switching between fast and debug builds > painless. See instructions at <http://salilab.org/imp/nightly/doc/html/installation.html > >. > > Likewise, everyone should probably have their own module (see > "managing your own module" on <http://salilab.org/imp/nightly/doc/html/devguide.html > >), checked in to your own svn repository so you have an easy way to > fiddle with things. > _______________________________________________ > IMP-dev mailing list > IMP-dev@salilab.org > https://salilab.org/mailman/listinfo/imp-dev
Sebnem Essiz Gokhan