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Move things to utils, test interchange creation #47

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Oct 7, 2024
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9c88278
Move interchange creation to utils
hannahbaumann Sep 25, 2024
38413d3
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot] Sep 25, 2024
00b712d
Test for interchange creation
hannahbaumann Sep 25, 2024
3a848e9
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot] Sep 25, 2024
477bef2
Add test for partial charges
hannahbaumann Sep 25, 2024
bab16de
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot] Sep 25, 2024
8ad6e9d
Rename utils file
hannahbaumann Sep 25, 2024
c459221
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot] Sep 25, 2024
a1eeaed
Small fix
hannahbaumann Sep 26, 2024
085c8c8
Move mdp writing to utils
hannahbaumann Sep 26, 2024
b416c1c
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot] Sep 26, 2024
d8e36e9
Try and fix tests that take so long
hannahbaumann Sep 26, 2024
8fecc09
Update results
hannahbaumann Sep 26, 2024
0a72927
Skip result check tests to see if that solves slowness problem
hannahbaumann Sep 26, 2024
a577248
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot] Sep 26, 2024
ec99d9e
Fix results
hannahbaumann Sep 26, 2024
f20b429
Update tests
hannahbaumann Sep 27, 2024
6e573ad
Merge main
hannahbaumann Sep 27, 2024
4beb1c3
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot] Sep 27, 2024
6deccb4
Add missing init file
IAlibay Sep 28, 2024
a30d3a2
Merge branch 'main' into move_things2utils
hannahbaumann Sep 30, 2024
544cc0f
Change partial charge test
hannahbaumann Sep 30, 2024
fa6dab8
Update doc strings
hannahbaumann Sep 30, 2024
c1c4a00
Pass individual settings to create_openmm_system
hannahbaumann Sep 30, 2024
40ede95
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot] Sep 30, 2024
839130e
Add tests for residue number and name
hannahbaumann Sep 30, 2024
f269ff6
Add other test back in
hannahbaumann Sep 30, 2024
2f80f6f
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot] Sep 30, 2024
031b04b
Test out new interchange
hannahbaumann Sep 30, 2024
4e78530
Disable residue number check for now till new interchange release
hannahbaumann Sep 30, 2024
c7dd503
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot] Sep 30, 2024
e1f996b
Update precommit.yaml
hannahbaumann Sep 30, 2024
62b40f1
Merge branch 'move_things2utils' of github.com:OpenFreeEnergy/openfe-…
hannahbaumann Sep 30, 2024
b546e01
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot] Sep 30, 2024
f7ccedf
install openff-interchange from source + re-enable test
mikemhenry Sep 30, 2024
a576a56
Merge branch 'main' into move_things2utils
hannahbaumann Oct 1, 2024
db009fe
Add mdout file to output_settings
hannahbaumann Oct 1, 2024
d01ab9d
Merge branch 'move_things2utils' of github.com:OpenFreeEnergy/openfe-…
hannahbaumann Oct 1, 2024
33de6fd
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot] Oct 1, 2024
c84ea90
Remove unused imports
hannahbaumann Oct 1, 2024
be2158e
Merge branch 'move_things2utils' of github.com:OpenFreeEnergy/openfe-…
hannahbaumann Oct 1, 2024
9ec736c
Update token
hannahbaumann Oct 1, 2024
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10 changes: 5 additions & 5 deletions .pre-commit-config.yaml
Original file line number Diff line number Diff line change
Expand Up @@ -2,7 +2,7 @@ ci:
autoupdate_schedule: "quarterly"
repos:
- repo: https://github.com/pre-commit/pre-commit-hooks
rev: v4.4.0
rev: v4.6.0
hooks:
- id: check-yaml
- id: debug-statements
Expand All @@ -12,23 +12,23 @@ repos:
- id: check-executables-have-shebangs
- id: check-json
- repo: https://github.com/psf/black
rev: 22.12.0
rev: 24.8.0
hooks:
- id: black
files: ^openfe_gromacs
- repo: https://github.com/PyCQA/isort
rev: 5.12.0
rev: 5.13.2
hooks:
- id: isort
files: ^openfe_gromacs
- repo: https://github.com/PyCQA/flake8
rev: 6.0.0
rev: 7.1.1
hooks:
- id: flake8
files: ^openfe_gromacs
additional_dependencies: [Flake8-pyproject]
- repo: https://github.com/asottile/pyupgrade
rev: 'v3.3.1'
rev: 'v3.17.0'
hooks:
- id: pyupgrade
args:
Expand Down
2 changes: 2 additions & 0 deletions environment.yml
Original file line number Diff line number Diff line change
Expand Up @@ -9,3 +9,5 @@ dependencies:
- pytest
- pytest-xdist
- pytest-cov
- pip:
- git+https://github.com/openforcefield/openff-interchange.git
4 changes: 4 additions & 0 deletions openfe_gromacs/__init__.py
Original file line number Diff line number Diff line change
@@ -1,3 +1,5 @@
from importlib.metadata import version

from gufe import (
AlchemicalNetwork,
ChemicalSystem,
Expand All @@ -19,3 +21,5 @@
ProtocolUnitResult,
execute_DAG,
)

__version__ = version("openfe_gromacs")
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