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Update docs for v1.1 #315

Merged
merged 123 commits into from
Aug 15, 2022
Merged

Update docs for v1.1 #315

merged 123 commits into from
Aug 15, 2022

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briandrawert
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@BryanRumsey
Fixed defaults for Domain.add_point. closes #299.
4fb7f1e
@BryanRumsey
Added a class for cominatory geometry.
0007cae
@BryanRumsey
Added numpy.bool_ to geometry.inside return type check.
1052431
@BryanRumsey
Added the new geometry to the import sturcture.
de83919
@BryanRumsey
Updated cylinder demo to use new geometry for middle type.
a2bc83f
@BryanRumsey
Added a lattice error class.
e5668f7
@BryanRumsey
Added the lattice module.
19aa6ab
@BryanRumsey
Added a base class for lattices.
abcd36e
@BryanRumsey
Added missing kwargs arg to apply.
0f4a5fe
@BryanRumsey
Added the cartesian lattice.
c7e9b0d
@BryanRumsey
Added checks to apply function to ensure proper args are passed. Adde…
6c45d5f 
…d spherical lattice.
@BryanRumsey
Bug fixes.
628eb00
@BryanRumsey
Added the cartesian and spherical lattices to the import structure.
9187fc7
@BryanRumsey
Added 2D support to the cartesian lattice.
40383de
@BryanRumsey
Added validation checks to combinatory geometry.
78086d8
@BryanRumsey
Merge branch 'geometry-combinations' of https://github.com/StochSS/Sp…
bd1fa75 
…atialPy into lattice
@BryanRumsey
Added cylindrical lattice.
165f82c
@BryanRumsey
Added the cylindrical lattice to the import structure.
81a1014
@BryanRumsey
Bug fixes.
3db8f5e
@BryanRumsey
Merge branch 'geometry-combinations' of https://github.com/StochSS/Sp…
0ffc721 
…atialPy into lattice
@BryanRumsey
Fixed the get bounding box function.
6cf9c8a
@BryanRumsey
Added function to update the domain limits after all particles have b…
19668bc 
…een added.
@BryanRumsey
Updated the get bounding box function.
afa0ba2
@BryanRumsey
Added the XMLMesh lattice.
b20e2a2
@BryanRumsey
Added the XMLMesh to the import stucture.
762fc7e
@BryanRumsey
More bug fixes.
bb5b312
@BryanRumsey
Merge branch 'geometry-combinations' of https://github.com/StochSS/Sp…
6ed15d8 
…atialPy into lattice
@BryanRumsey
Added the mesh IO lattice.
8053a63
@BryanRumsey
Added the mesh IO lattice to the import structure.
1fc7323
@BryanRumsey
Added stochss lattice class.
a49596d
BryanRumsey and others added 23 commits August 12, 2022 14:46
@BryanRumsey
Added a Domain.compile_prep call Model.add_domain.
159e650
@BryanRumsey
Merge branch 'review-changes' of https://github.com/StochSS/SpatialPy …
a1d1f3d 
…into pre_v1.1_staging
@BryanRumsey
Merge branch 'lattice' of https://github.com/StochSS/SpatialPy into t…
feff10e 
…ransformations
@BryanRumsey
Merge branch 'transformations' of https://github.com/StochSS/SpatialPy …
c0b4b01 
…into actions-and-apply-funcs
@BryanRumsey
Merge branch 'actions-and-apply-funcs' of https://github.com/StochSS/…
7c7da80 
…SpatialPy into actions-and-apply-funcs
@BryanRumsey
Merge branch 'develop' of https://github.com/StochSS/SpatialPy into g…
d8b0a30 
…eometry-combinations
@BryanRumsey
Merge branch 'geometry-combinations' of https://github.com/StochSS/Sp…
1f34493 
…atialPy into lattice
@BryanRumsey
Merge branch 'lattice' of https://github.com/StochSS/SpatialPy into t…
55c304a 
…ransformations
@BryanRumsey
Merge branch 'transformations' of https://github.com/StochSS/SpatialPy …
7ed76df 
…into actions-and-apply-funcs
@BryanRumsey
Merge branch 'actions-and-apply-funcs' of https://github.com/StochSS/…
2f0f0dc 
…SpatialPy into examples-with-actions
@BryanRumsey
Merge branch 'examples-with-actions' of https://github.com/StochSS/Sp…
cca380f 
…atialPy into reflect-transform
@BryanRumsey
Merge branch 'reflect-transform' of https://github.com/StochSS/SpatialPy
e746070 
 into scaling-transform
@BryanRumsey
Resolved merge conflicts.
95b0b26
@BryanRumsey
Added calculations for particle volume to lattices.
7267c40
@BryanRumsey
Merge branch 'review-changes' of https://github.com/StochSS/SpatialPy …
dc28507 
…into pre_v1.1_staging
@BryanRumsey
bug squashing.
7352634
@BryanRumsey
Merge branch 'review-changes' of https://github.com/StochSS/SpatialPy …
324fbd7 
…into pre_v1.1_staging
@BryanRumsey
Added a 3d cylinder example using lattices and actions.
4ce3ad3
@BryanRumsey
Fixed geometries.
502aeb5
@briandrawert
converting Cylinder Demo to ode_propensity_functions, correcting bug
9c2c5b8
@briandrawert
Merge branch 'pre_v1.1_staging' of github.com:stochss/SpatialPy into …
3309ef8 
…pre_v1.1_staging
@briandrawert
Merge branch 'pre_v1.1_staging' of github.com:stochss/SpatialPy into …
c6d5573 
…update_docs_v1.1
@briandrawert
updating docs
e316deb
@briandrawert briandrawert marked this pull request as ready for review August 12, 2022 22:11
@briandrawert briandrawert moved this from In Progress to Ready for Review in Release v1.1.0 Aug 12, 2022
@BryanRumsey BryanRumsey mentioned this pull request Aug 15, 2022
Merged
@briandrawert briandrawert merged commit b63e34b into develop Aug 15, 2022
Release v1.1.0 automation moved this from Ready for Review to Done Aug 15, 2022
@briandrawert briandrawert deleted the update_docs_v1.1 branch August 15, 2022 16:31
@BryanRumsey BryanRumsey mentioned this pull request Aug 15, 2022
Merged
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Update documentation
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@briandrawert @BryanRumsey