GROMACS development

10/19/2018

12:49 AM GROMACS Feature #1168 (In Progress): g_density does not do what users think it does, given PBC over z and constant pressure simulation

Updating status to reflect Chris' latest comment about the issue still persisting.

10/04/2018

04:05 PM GROMACS Revision c7830c47: Made conversion of Drude bonds to hyperpolarization cleaner.

04:04 PM GROMACS Revision ad1cbe41: Fixed LP pair/exclusion generation and updated LP

construction constants for disulfides.

08/23/2018

02:08 PM GROMACS Feature #2622: Reduce severity of Berendsen warning

Mark Abraham wrote:
> Justin Lemkul wrote:
> > I have noticed in the latest version that any use of Berendsen coupl...

08/22/2018

03:43 PM GROMACS Feature #2622: Reduce severity of Berendsen warning

Berk Hess wrote:
> I disagree on 1), since a Bussi thermostat has all the advantages of the Berendsen thermostat, bu...

01:37 PM GROMACS Feature #2622 (New): Reduce severity of Berendsen warning

I have noticed in the latest version that any use of Berendsen coupling algorithms prompts a warning, causing grompp ...

03/17/2018

04:35 PM GROMACS Feature #2451: Linear virtual sites with fixed distance

David van der Spoel wrote:
> Just wondering whether fixing the 3FAD such that it can deal with 180 degree angles wou...

03/14/2018

02:05 PM GROMACS Feature #2451: Linear virtual sites with fixed distance

However we want to define it is fine, though it is a little confusing to have a negative number extend beyond the end...

11:35 AM GROMACS Feature #2451: Linear virtual sites with fixed distance

David van der Spoel wrote:
> Outside the halide atom I think, maybe Justin can comment, but this is a matter of defi...

02/14/2018

06:26 PM GROMACS Revision 3f7439a9: Removed more debugging stuff.