Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

Toy spatial #225

Merged
merged 22 commits into from
Sep 27, 2023
Merged

Toy spatial #225

Show file tree
Hide file tree
Changes from 14 commits
Commits
Show all changes
22 commits
Select commit Hold shift + click to select a range
f5cdef3
infected to infect
laraherriott Mar 15, 2023
84e69d2
Add toy spatial run files
laraherriott Mar 16, 2023
a115123
Merge branch 'main' of github.com:SABS-R3-Epidemiology/epiabm into to…
laraherriott Mar 16, 2023
ecc4509
Improve and combine plotting
laraherriott Mar 16, 2023
b6f78a3
Run for multiple av5
laraherriott Mar 16, 2023
fe13de0
changes to plotting and run files
laraherriott Apr 30, 2023
f7fe68c
Merge branch 'main' of github.com:SABS-R3-Epidemiology/epiabm into to…
laraherriott Apr 30, 2023
eac04d5
Change files to run with new spatial
laraherriott May 3, 2023
d473c24
Merge branch 'main' of github.com:SABS-R3-Epidemiology/epiabm into to…
laraherriott May 26, 2023
8fe8cea
Latest changes for latest simulations
laraherriott Jun 12, 2023
9f8b0f3
Merge remote-tracking branch 'origin/main' into toy-spatial
laraherriott Sep 26, 2023
21e7751
Clean up toy population examples
laraherriott Sep 26, 2023
eca5f9e
Merge branch 'main' into toy-spatial
laraherriott Sep 26, 2023
3eda15d
Merge branch 'main' into toy-spatial
KCGallagher Sep 26, 2023
fa2aaae
Add explanation for making up the population size
laraherriott Sep 26, 2023
0b15efd
Merge branch 'toy-spatial' of github.com:SABS-R3-Epidemiology/epiabm …
laraherriott Sep 26, 2023
a7ea63f
Remove pandas depreciation warnings
KCGallagher Sep 26, 2023
6b7ed53
Merge branch 'toy-spatial' of https://github.com/SABS-R3-Epidemiology…
KCGallagher Sep 26, 2023
e76e3df
Ensure pandas 1.4+ compatibility in maps
KCGallagher Sep 26, 2023
221f931
Merge new changes
laraherriott Sep 26, 2023
612e933
Re-run following change to recovered
laraherriott Sep 27, 2023
d01dd41
Merge branch 'main' into toy-spatial
KCGallagher Sep 27, 2023
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
560 changes: 560 additions & 0 deletions python_examples/toy_spatial/model_population.ipynb
View file
Open in desktop

Large diffs are not rendered by default.

435 changes: 435 additions & 0 deletions python_examples/toy_spatial/noInt_params.json
View file
Open in desktop

Large diffs are not rendered by default.

152 changes: 152 additions & 0 deletions python_examples/toy_spatial/simulation_outputs/combined_summary.csv
View file
Open in desktop

Large diffs are not rendered by default.

1,297 changes: 1,297 additions & 0 deletions python_examples/toy_spatial/uniform_inputs/input_12x12_av5_places.csv
View file
Open in desktop

Large diffs are not rendered by default.

2,026 changes: 2,026 additions & 0 deletions python_examples/toy_spatial/uniform_inputs/input_15x15_av5_places.csv
View file
Open in desktop

Large diffs are not rendered by default.

145 changes: 145 additions & 0 deletions python_examples/toy_spatial/uniform_inputs/input_4x4_av5_places.csv
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -0,0 +1,145 @@
cell,microcell,location_x,location_y,household_number,place_number,Susceptible
0,0,0,0,13,13,69
0,1,0,0,13,13,69
0,2,0,0,13,13,69
0,3,0,0,13,13,69
0,4,0,0,13,13,69
0,5,0,0,13,13,69
0,6,0,0,13,13,69
0,7,0,0,13,13,69
0,8,0,0,13,13,69
1,0,0,1,13,13,69
1,1,0,1,13,13,69
1,2,0,1,13,13,69
1,3,0,1,13,13,69
1,4,0,1,13,13,69
1,5,0,1,13,13,69
1,6,0,1,13,13,69
1,7,0,1,13,13,69
1,8,0,1,13,13,69
2,0,0,2,13,13,69
2,1,0,2,13,13,69
2,2,0,2,13,13,69
2,3,0,2,13,13,69
2,4,0,2,13,13,69
2,5,0,2,13,13,69
2,6,0,2,13,13,69
2,7,0,2,13,13,69
2,8,0,2,13,13,69
3,0,0,3,13,13,69
3,1,0,3,13,13,69
3,2,0,3,13,13,69
3,3,0,3,13,13,69
3,4,0,3,13,13,69
3,5,0,3,13,13,69
3,6,0,3,13,13,69
3,7,0,3,13,13,69
3,8,0,3,13,13,69
4,0,1,0,13,13,69
4,1,1,0,13,13,69
4,2,1,0,13,13,69
4,3,1,0,13,13,69
4,4,1,0,13,13,69
4,5,1,0,13,13,69
4,6,1,0,13,13,69
4,7,1,0,13,13,69
4,8,1,0,13,13,69
5,0,1,1,13,13,69
5,1,1,1,13,13,69
5,2,1,1,13,13,69
5,3,1,1,13,13,69
5,4,1,1,13,13,69
5,5,1,1,13,13,69
5,6,1,1,13,13,69
5,7,1,1,13,13,69
5,8,1,1,13,13,69
6,0,1,2,13,13,69
6,1,1,2,13,13,69
6,2,1,2,13,13,69
6,3,1,2,13,13,69
6,4,1,2,13,13,69
6,5,1,2,13,13,69
6,6,1,2,13,13,69
6,7,1,2,13,13,69
6,8,1,2,13,13,69
7,0,1,3,13,13,69
7,1,1,3,13,13,69
7,2,1,3,13,13,69
7,3,1,3,13,13,69
7,4,1,3,13,13,69
7,5,1,3,13,13,69
7,6,1,3,13,13,69
7,7,1,3,13,13,69
7,8,1,3,13,13,69
8,0,2,0,13,13,69
8,1,2,0,13,13,69
8,2,2,0,13,13,69
8,3,2,0,13,13,69
8,4,2,0,13,13,69
8,5,2,0,13,13,69
8,6,2,0,13,13,69
8,7,2,0,13,13,69
8,8,2,0,13,13,70
9,0,2,1,13,13,70
9,1,2,1,13,13,70
9,2,2,1,13,13,70
9,3,2,1,13,13,70
9,4,2,1,13,13,70
9,5,2,1,13,13,70
9,6,2,1,13,13,70
9,7,2,1,13,13,70
9,8,2,1,13,13,70
10,0,2,2,13,13,70
10,1,2,2,13,13,70
10,2,2,2,13,13,70
10,3,2,2,13,13,70
10,4,2,2,13,13,70
10,5,2,2,13,13,70
10,6,2,2,13,13,70
10,7,2,2,13,13,70
10,8,2,2,13,13,70
11,0,2,3,13,13,70
11,1,2,3,13,13,70
11,2,2,3,13,13,70
11,3,2,3,13,13,70
11,4,2,3,13,13,70
11,5,2,3,13,13,70
11,6,2,3,13,13,70
11,7,2,3,13,13,70
11,8,2,3,13,13,70
12,0,3,0,13,13,70
12,1,3,0,13,13,70
12,2,3,0,13,13,70
12,3,3,0,13,13,70
12,4,3,0,13,13,70
12,5,3,0,13,13,70
12,6,3,0,13,13,70
12,7,3,0,13,13,70
12,8,3,0,13,13,70
13,0,3,1,13,13,70
13,1,3,1,13,13,70
13,2,3,1,13,13,70
13,3,3,1,13,13,70
13,4,3,1,13,13,70
13,5,3,1,13,13,70
13,6,3,1,13,13,70
13,7,3,1,13,13,70
13,8,3,1,13,13,70
14,0,3,2,13,13,70
14,1,3,2,13,13,70
14,2,3,2,13,13,70
14,3,3,2,13,13,70
14,4,3,2,13,13,70
14,5,3,2,13,13,70
14,6,3,2,13,13,70
14,7,3,2,13,13,70
14,8,3,2,13,13,70
15,0,3,3,13,13,70
15,1,3,3,13,13,70
15,2,3,3,13,13,70
15,3,3,3,13,13,70
15,4,3,3,13,13,70
15,5,3,3,13,13,70
15,6,3,3,13,13,70
15,7,3,3,13,13,70
15,8,3,3,13,13,70
Loading
Loading