Search found 223 matches

by Siddharth Srinivasan
Thu Sep 12, 2019 9:04 pm
Forum: OpenMM
Topic: Changelog for versions
Replies: 3
Views: 92

Re: Changelog for versions

That's perfect, thanks!
by Siddharth Srinivasan
Thu Sep 12, 2019 4:32 pm
Forum: OpenMM
Topic: Changelog for versions
Replies: 3
Views: 92

Re: Changelog for versions

by Siddharth Srinivasan
Thu Sep 12, 2019 4:25 pm
Forum: OpenMM
Topic: Changelog for versions
Replies: 3
Views: 92

Changelog for versions

Hi all

Where can I find a full changelog for 7.4?
This release adds performance improvements, more accelerated sampling methods, PPC support, and more
seems unsatisfying. A proper changelog would be very useful to decide whether to upgrade or not.
by Siddharth Srinivasan
Tue Jun 11, 2019 2:56 pm
Forum: OpenMM
Topic: Equilibration using OpenMM
Replies: 0
Views: 104

Equilibration using OpenMM

Hi all I've been using OpenMM for a while on solvated and equilibrated structures obtained using other means. I was wondering if anyone uses OpenMM to equilibrate a large protein from the initial crystal structure. This would involve * Solvation using a pre-equilibrated water box or something simila...
by Siddharth Srinivasan
Mon Oct 30, 2017 10:22 pm
Forum: OpenMM
Topic: Volta support
Replies: 6
Views: 351

Re: Volta support

Actually I ended up delving into the "python" directory and doing a
python setup.py install --prefix=..
and it seemed to work.
by Siddharth Srinivasan
Mon Oct 30, 2017 6:42 pm
Forum: OpenMM
Topic: Volta support
Replies: 6
Views: 351

Re: Volta support

Hi there I managed to get the latest OpenMM to compile from source. However I am trying to build the Python API as mentioned in the user guide, and get siddharth@node505 ~/Downloads/build_openmm $ make PythonInstall -- Configuring done -- Generating done -- Build files have been written to: /Network...
by Siddharth Srinivasan
Fri Oct 27, 2017 1:31 pm
Forum: OpenMM
Topic: Volta support
Replies: 6
Views: 351

Re: Volta support

Brilliant, thanks!
by Siddharth Srinivasan
Fri Oct 27, 2017 1:16 pm
Forum: OpenMM
Topic: Volta support
Replies: 6
Views: 351

Re: Volta support

So I would have to compile from source, and not use the precompiled binaries?
by Siddharth Srinivasan
Thu Oct 26, 2017 1:19 pm
Forum: OpenMM
Topic: Volta support
Replies: 6
Views: 351

Volta support

Hi all AWS just got some Volta instances, and I noticed some ongoing work for Volta support in the github pull requests. What is the current status of this effort? I tried using OpenMM 7.0.1 with CUDA 7 which we have used so far, and get Exception: Error downloading array interactionCount: clEnqueue...
by Siddharth Srinivasan
Fri Jan 27, 2017 12:47 pm
Forum: OpenMM
Topic: Interaction energies of subsets
Replies: 6
Views: 231

Re: Interaction energies of subsets

Right. So I think the overall answer here is that its possible but complicated to get the entire force field to work with subsets, so I'll just shelve this for now. Thanks for your replies!