Skip to content
Open
Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
35 commits
Select commit Hold shift + click to select a range
a4cdf9a
ethanol-water density curve
arnon-1 Feb 7, 2026
0c713e6
Merge remote-tracking branch 'origin/main'
arnon-1 Feb 7, 2026
2b5a123
add reference
arnon-1 Feb 7, 2026
7aa82c4
split calcs
arnon-1 Feb 10, 2026
7140c3c
Better checkpointing
arnon-1 Feb 10, 2026
a2db61a
linting and ruff
arnon-1 Feb 10, 2026
c079f23
fix imports
arnon-1 Feb 10, 2026
af09d97
Fix liquids numpydoc issues for pre-commit
arnon-1 Feb 10, 2026
d20de41
Merge pull request #1 from arnon-1/codex/fix-pre-commit-hook-issues
arnon-1 Feb 10, 2026
84e66b5
simplify logic
arnon-1 Feb 11, 2026
5b93a19
Merge github.com:arnon-1/ml-peg
arnon-1 Feb 11, 2026
8cd952d
Merge branch 'main' of https://github.com/ddmms/ml-peg
arnon-1 Feb 11, 2026
f99a1fe
fix dispersion
arnon-1 Feb 11, 2026
5ca1e4c
longer run
arnon-1 Feb 11, 2026
fd4d812
shorten dispersion for testing
arnon-1 Feb 17, 2026
a2bb0ad
checkpoint loading
arnon-1 Feb 18, 2026
7797ed3
error and density plots
arnon-1 Feb 27, 2026
2dc18c1
unify settings
arnon-1 Feb 27, 2026
0ba0236
excess density to excess volume
arnon-1 Feb 27, 2026
89a8cb0
fix app
arnon-1 Feb 27, 2026
fb98e6d
mark test very slow
arnon-1 Feb 27, 2026
504e68f
add docs
arnon-1 Feb 27, 2026
c210c34
Merge remote-tracking branch 'origin/main'
arnon-1 Feb 27, 2026
a493f59
only use half of npt samples
arnon-1 Feb 27, 2026
c2137e7
simplify
arnon-1 Mar 18, 2026
fb2963d
fix
arnon-1 Mar 18, 2026
30b3744
simplify
arnon-1 Mar 19, 2026
f59da93
simplify
arnon-1 Mar 19, 2026
63a0548
put all analysis in 1 file
arnon-1 Mar 19, 2026
342dc12
put all calc in 1 file
arnon-1 Mar 19, 2026
86ff66d
Merge remote-tracking branch 'origin/main'
arnon-1 Mar 19, 2026
78dd58c
remove ifmain
arnon-1 Mar 20, 2026
c9a27d6
Apply suggestions from code review
arnon-1 Mar 20, 2026
f91a26b
fix
arnon-1 Mar 20, 2026
08d154c
download data
arnon-1 Mar 20, 2026
File filter

Filter by extension

Filter by extension

Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
33 changes: 33 additions & 0 deletions docs/source/user_guide/benchmarks/liquids.rst
Original file line number Diff line number Diff line change
@@ -0,0 +1,33 @@
=================
Liquids
=================

Water ethanol density curves
=======

Summary
-------

Benchmark of the density of water-ethanol mixtures using NPT MD for different concentrations of ethanol, compare to experiment.


Metrics
-------

1. rms of the density difference.
2. rms of the excess volume difference.
3. Location of the minimal excess volume.


Data availability
-----------------
Input structures:
Packmol generated

Reference densities:
From: M. Southard and D. Green, Perry’s Chemical Engineers’ Handbook, 9th Edition. McGraw-Hill Education, 2018.

Computational cost
------------------

Very high - 1 ns of NPT MD on about 120 water/ethanol molecules, 7 times per model.
Loading