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Major updates to infrastructure #44

Merged
merged 520 commits into from
Mar 8, 2022
Merged

Major updates to infrastructure #44

merged 520 commits into from
Mar 8, 2022

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ctlee
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@ctlee ctlee commented Jun 8, 2021 •
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Major updates to the pymem3dg infrastructure

  • Add infrastructure for documentation (both c++ and python)
  • Refactoring core code infrastructure
  • Update python packaging

CunchengZhu and others added 30 commits May 17, 2021 10:09
@CunchengZhu
seperate meshmutator
1a2904a
@CunchengZhu
cut bending pressure implementation
1c4b64d
@CunchengZhu
boundary mutation, chemical potential,
1dc628c
@CunchengZhu
add chemical potential visualization
0c2502c
@CunchengZhu
errorbacktracking, seperate interior penalty, gradient gradient based…
45f5438 
… dirichlet force, unifying line tension
@CunchengZhu
leftover from last commit
301f89a
@ctlee
Bump to pybind11 2.6.2
fc7b9ae 
Signed-off-by: Chris Lee <ctlee@ucsd.edu>
@ctlee
Bump to Eigen 3.3.9; Simplify libigl build
e9cf3f4 
Signed-off-by: Chris Lee <ctlee@ucsd.edu>
@ctlee
update googletest to track head
537c8a3 
Signed-off-by: Chris Lee <ctlee@ucsd.edu>
@ctlee
Add pull request template
8aa0dd0 
Signed-off-by: Chris Lee <ctlee@ucsd.edu>
@ctlee
Merge branch 'development' into streamline_dependencies
4ab2a00
@CunchengZhu
Merge pull request #40 from RangamaniLabUCSD/streamline_dependencies
37f3e33 
Streamline dependencies
@CunchengZhu
ci script
9c5eccc 
Co-authored-by: Christopher Lee <ctlee@users.noreply.github.com>
@ctlee
Recursive submodule on CI; Fix apt package names
27722b2 
Signed-off-by: Chris Lee <ctlee@ucsd.edu>
@ctlee
Remove macos-11; Add vcpkg to cmake toolchain
0dba9fd 
Signed-off-by: Chris Lee <ctlee@ucsd.edu>
@ctlee
Try run-vcpkg action
fc54bed 
Signed-off-by: Chris Lee <ctlee@ucsd.edu>
@ctlee
Fix yaml typo
e599ddc
@ctlee
Add vcpkg version for ci
0d12c48 
Signed-off-by: Chris Lee <ctlee@ucsd.edu>
@ctlee
Fix vcpkg toolchain path
223b80b 
Signed-off-by: Chris Lee <ctlee@ucsd.edu>
@ctlee
Add python test in ctest
9c744e5 
Signed-off-by: Chris Lee <ctlee@ucsd.edu>
@ctlee
Install pytest in ci
98ce4fb 
Signed-off-by: Chris Lee <ctlee@ucsd.edu>
@ctlee
Set python executable specifically in ci; Test doc
9dd849d 
Signed-off-by: Chris Lee <ctlee@ucsd.edu>
@ctlee
Actually checkout repo for building docs
5337869 
Signed-off-by: Chris Lee <ctlee@ucsd.edu>
@ctlee
Install some dependencies for configuring docs
9941122 
Signed-off-by: Chris Lee <ctlee@ucsd.edu>
@ctlee
Butter for scikit-build to FindPython
388c4ea 
Signed-off-by: Chris Lee <ctlee@ucsd.edu>
@ctlee
Initial support for sphinx pymem3dg docs
0f8cfc4 
Signed-off-by: Chris Lee <ctlee@ucsd.edu>
@ctlee
Cleaning ignored doc files
c2a50a9 
Signed-off-by: Chris Lee <ctlee@ucsd.edu>
@ctlee
Use make on rtd
2d2ffa8 
Signed-off-by: Chris Lee <ctlee@ucsd.edu>
@ctlee
Clone submodules on rtd
ac07d76 
Signed-off-by: Chris Lee <ctlee@ucsd.edu>
@ctlee
Add doxygen to GA docs requirements
66d320b 
Signed-off-by: Chris Lee <ctlee@ucsd.edu>
CunchengZhu and others added 28 commits January 31, 2022 10:32
@CunchengZhu
chore: minor change in runtime warnings
2424fa7
@CunchengZhu
refactor: more readable schlafli vector,
948f067 
tested consistent result
@CunchengZhu
chore: update force and energy
f141ca3
@CunchengZhu
chore: update cal condition, WIP still failing
a4d2b6c
@CunchengZhu
chore: add Kdc
caaaa8f
@CunchengZhu
fix: potential energy to prevent recompute external work
1aa1bbe
@CunchengZhu
revert adsorption and aggregation
bdfc7a0
@CunchengZhu
Merge branch 'deviatoric_recalculation' into development
fe643c3
@CunchengZhu
style: remove ///
8d0f001
@CunchengZhu
fix: minor bug fix
707af8c
@CunchengZhu
style&refacotr: force cal test
1777a9f
@CunchengZhu
style: add printing
40c9859
@CunchengZhu
fix: bug fix on Gaussian component of Deviatoric!
445742f
@CunchengZhu
chore: add reminders
a6d5d6f
@CunchengZhu
Merge commit 'a6d5d6fb593f2b582b439b696aa1bc4a4a01e469' into development
86631d5
@CunchengZhu
feat!: expose nMutation
4976ff7
@CunchengZhu
chore: minor change of setting
8550a89
@ctlee
ci: Default to use python3 on ci platforms
f27b0c0 
Signed-off-by: Christopher T. Lee <ctlee@ucsd.edu>
@CunchengZhu
style
feada90
@CunchengZhu
fix: disable pytest temporarily
48bc1ee
@CunchengZhu
Merge branch 'release_prep' into development
b2b6a92
@CunchengZhu
fix!: mutation without meshProcessor in nitializer
c9164ae
@CunchengZhu
Merge branch 'release_prep' into development
111ebb2
@CunchengZhu
Merge branch 'development' of https://github.com/RangamaniLabUCSD/Mem3DG
1898af1 
 into development
@CunchengZhu
chore: remove import from _core
6ff64df
@CunchengZhu
Merge branch 'release_prep' of https://github.com/RangamaniLabUCSD/Me…
5764547 
…m3DG into release_prep
@CunchengZhu
Merge branch 'release_prep' into development
d71c8a0
@CunchengZhu
Bump version to 0.0.4
d4c3871
@ctlee ctlee marked this pull request as ready for review March 8, 2022 01:54
@ctlee ctlee merged commit a2c3b38 into master Mar 8, 2022
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2 participants
@ctlee @CunchengZhu