mantis-rtm 0.1.1.dev0__tar.gz

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (53) hide show
  1. mantis_rtm-0.1.1.dev0/.gitignore +35 -0
  2. mantis_rtm-0.1.1.dev0/.python-version +1 -0
  3. mantis_rtm-0.1.1.dev0/LICENSE +661 -0
  4. mantis_rtm-0.1.1.dev0/PKG-INFO +175 -0
  5. mantis_rtm-0.1.1.dev0/README.md +134 -0
  6. mantis_rtm-0.1.1.dev0/docs/tutorial.md +605 -0
  7. mantis_rtm-0.1.1.dev0/docs/tutorial.org +515 -0
  8. mantis_rtm-0.1.1.dev0/examples/velde_et_al_2016/00readme.md +1 -0
  9. mantis_rtm-0.1.1.dev0/examples/velde_et_al_2016/fes_reactions.py +140 -0
  10. mantis_rtm-0.1.1.dev0/examples/velde_et_al_2016/kinetic_constants_slow.py +108 -0
  11. mantis_rtm-0.1.1.dev0/examples/velde_et_al_2016/plot_layout.py +175 -0
  12. mantis_rtm-0.1.1.dev0/examples/velde_et_al_2016/run_velde_model.py +72 -0
  13. mantis_rtm-0.1.1.dev0/examples/velde_et_al_2016/species.py +221 -0
  14. mantis_rtm-0.1.1.dev0/pyproject.toml +148 -0
  15. mantis_rtm-0.1.1.dev0/pyrightconfig.json +13 -0
  16. mantis_rtm-0.1.1.dev0/requirements.txt +6 -0
  17. mantis_rtm-0.1.1.dev0/setup.cfg +4 -0
  18. mantis_rtm-0.1.1.dev0/src/.vscode/settings.json +4 -0
  19. mantis_rtm-0.1.1.dev0/src/mantis/__init__.py +5 -0
  20. mantis_rtm-0.1.1.dev0/src/mantis/_version.py +24 -0
  21. mantis_rtm-0.1.1.dev0/src/mantis/diff_lib.py +1937 -0
  22. mantis_rtm-0.1.1.dev0/src/mantis/generate_equation_system.py +1975 -0
  23. mantis_rtm-0.1.1.dev0/src/mantis/live_plot_lib.py +623 -0
  24. mantis_rtm-0.1.1.dev0/src/mantis/model.py +942 -0
  25. mantis_rtm-0.1.1.dev0/src/mantis/monitor_plots.py +171 -0
  26. mantis_rtm-0.1.1.dev0/src/mantis/monolithic_solver.py +904 -0
  27. mantis_rtm-0.1.1.dev0/src/mantis/parallel_video.py +523 -0
  28. mantis_rtm-0.1.1.dev0/src/mantis/plot_data_new.py +1363 -0
  29. mantis_rtm-0.1.1.dev0/src/mantis/solvers_numba.py +219 -0
  30. mantis_rtm-0.1.1.dev0/src/mantis_rtm.egg-info/PKG-INFO +175 -0
  31. mantis_rtm-0.1.1.dev0/src/mantis_rtm.egg-info/SOURCES.txt +51 -0
  32. mantis_rtm-0.1.1.dev0/src/mantis_rtm.egg-info/dependency_links.txt +1 -0
  33. mantis_rtm-0.1.1.dev0/src/mantis_rtm.egg-info/entry_points.txt +6 -0
  34. mantis_rtm-0.1.1.dev0/src/mantis_rtm.egg-info/requires.txt +19 -0
  35. mantis_rtm-0.1.1.dev0/src/mantis_rtm.egg-info/scm_file_list.json +46 -0
  36. mantis_rtm-0.1.1.dev0/src/mantis_rtm.egg-info/scm_version.json +8 -0
  37. mantis_rtm-0.1.1.dev0/src/mantis_rtm.egg-info/top_level.txt +1 -0
  38. mantis_rtm-0.1.1.dev0/tests/test_diagenetic_model.py +65 -0
  39. mantis_rtm-0.1.1.dev0/tests/test_direct_solver_numpy.py +119 -0
  40. mantis_rtm-0.1.1.dev0/tests/test_equivalence.py +224 -0
  41. mantis_rtm-0.1.1.dev0/tests/test_fes_flux_limited.py +199 -0
  42. mantis_rtm-0.1.1.dev0/tests/test_fes_predictor_corrector.py +165 -0
  43. mantis_rtm-0.1.1.dev0/tests/test_fes_smooth_transition.py +168 -0
  44. mantis_rtm-0.1.1.dev0/tests/test_fes_symmetrical_picard.py +408 -0
  45. mantis_rtm-0.1.1.dev0/tests/test_generate_equation_system.py +366 -0
  46. mantis_rtm-0.1.1.dev0/tests/test_log_compression.py +159 -0
  47. mantis_rtm-0.1.1.dev0/tests/test_monod_linearization.py +220 -0
  48. mantis_rtm-0.1.1.dev0/tests/test_parallel_video.py +156 -0
  49. mantis_rtm-0.1.1.dev0/tests/test_plot_data_options.py +246 -0
  50. mantis_rtm-0.1.1.dev0/tests/test_reactant_coexistence.py +74 -0
  51. mantis_rtm-0.1.1.dev0/tests/test_s0_disproportionation.py +145 -0
  52. mantis_rtm-0.1.1.dev0/tests/test_solvers_numba.py +125 -0
  53. mantis_rtm-0.1.1.dev0/tests/test_video_queue_and_logging.py +156 -0
mantis_rtm-0.1.1.dev0/.gitignore ADDED
@@ -0,0 +1,35 @@
1
+ # Python-generated files
2
+ __pycache__/
3
+ *.py[oc]
4
+ build/
5
+ ltximg/
6
+ notes/
7
+ dist/
8
+ nbk/
9
+ wheels/
10
+ *.egg-info
11
+ src/*.egg-info
12
+ src/**/_version.py
13
+ _version.py
14
+ TAGS
15
+ *.pdf
16
+ *.csv
17
+ *.egg
18
+ *.py[cod]
19
+ *.pyo
20
+ *.pyd
21
+ *.code-workspace
22
+ *.npz
23
+ *.npz-old
24
+ *.mp4
25
+ CLAUDE.md
26
+ *.log
27
+ *.gz
28
+ .unison*
29
+
30
+
31
+
32
+ # Virtual environments
33
+ .venv
34
+ env/
35
+ venv/
mantis_rtm-0.1.1.dev0/.python-version ADDED
@@ -0,0 +1 @@
1
+ 3.14