From e120186df557cee489550573426764280ee89a55 Mon Sep 17 00:00:00 2001 From: kkaris Date: Tue, 9 Apr 2024 08:43:27 -0700 Subject: [PATCH 1/3] Add/modify initials to model --- .../epi_scenario1/epi_eval_sc1_strains.ipynb | 151 ++++++++++++++++-- 1 file changed, 135 insertions(+), 16 deletions(-) diff --git a/notebooks/evaluation_2024.03/epi_scenario1/epi_eval_sc1_strains.ipynb b/notebooks/evaluation_2024.03/epi_scenario1/epi_eval_sc1_strains.ipynb index 5bed5422..9c7b2096 100644 --- a/notebooks/evaluation_2024.03/epi_scenario1/epi_eval_sc1_strains.ipynb +++ b/notebooks/evaluation_2024.03/epi_scenario1/epi_eval_sc1_strains.ipynb @@ -12,7 +12,7 @@ { "cell_type": "code", "execution_count": 1, - "id": "fe970922-3aa4-40b5-9caf-4afc08cef04d", + "id": "b1d20fb5-6925-4bda-b652-f9281d8c5ba4", "metadata": {}, "outputs": [ { @@ -30,14 +30,37 @@ "source": [ "# Get an ready-made example SIR model that has parameters and initial values already set\n", "# (note that the model is missing units)\n", - "from mira.examples.sir import sir_parameterized_init\n", + "from mira.examples.sir import sir_parameterized_init, sir_init_val_norm\n", "from mira.metamodel import *\n", "\n", "susceptible = sir_parameterized_init.get_concepts_name_map()['susceptible_population']\n", "infected = sir_parameterized_init.get_concepts_name_map()['infected_population']\n", "recovered = sir_parameterized_init.get_concepts_name_map()['immune_population']\n", "\n", - "sir_parameterized_init.draw_jupyter()\n" + "sir_parameterized_init.draw_jupyter()" + ] + }, + { + "cell_type": "code", + "execution_count": 2, + "id": "def6891b-4dac-4216-842f-705b8efdf36f", + "metadata": {}, + "outputs": [ + { + "data": { + "text/plain": [ + "{'susceptible_population': Initial(concept=Concept(name='susceptible_population', display_name=None, description=None, identifiers={'ido': '0000514'}, context={}, units=Unit(expression=person)), expression=99999.0),\n", + " 'infected_population': Initial(concept=Concept(name='infected_population', display_name=None, description=None, identifiers={'ido': '0000511'}, context={}, units=Unit(expression=person)), expression=1),\n", + " 'immune_population': Initial(concept=Concept(name='immune_population', display_name=None, description=None, identifiers={'ido': '0000592'}, context={}, units=Unit(expression=person)), expression=0)}" + ] + }, + "execution_count": 2, + "metadata": {}, + "output_type": "execute_result" + } + ], + "source": [ + "sir_parameterized_init.initials" ] }, { @@ -51,7 +74,7 @@ }, { "cell_type": "code", - "execution_count": 2, + "execution_count": 3, "id": "745c1649-8e91-42f8-a931-766c51ed1f5e", "metadata": {}, "outputs": [ @@ -62,7 +85,7 @@ "" ] }, - "execution_count": 2, + "execution_count": 3, "metadata": {}, "output_type": "execute_result" } @@ -77,11 +100,36 @@ " key='strain', \n", " strata=strains, \n", " concepts_to_preserve=['susceptible_population'], \n", - " structure=[]\n", + " structure=[],\n", ")\n", "strain_model.draw_jupyter(\"sir.png\")" ] }, + { + "cell_type": "code", + "execution_count": 4, + "id": "32077ecc-7cf4-4c49-a449-44b80844beaa", + "metadata": {}, + "outputs": [ + { + "name": "stdout", + "output_type": "stream", + "text": [ + "susceptible_population 99999.0\n", + "infected_population_alpha 1/3\n", + "infected_population_delta 1/3\n", + "infected_population_omicron 1/3\n", + "immune_population_alpha 0\n", + "immune_population_delta 0\n", + "immune_population_omicron 0\n" + ] + } + ], + "source": [ + "for name, init in strain_model.initials.items():\n", + " print(name, init.expression)" + ] + }, { "cell_type": "markdown", "id": "e1a19ab7-6ba5-4d2f-9dd8-bc50532deb8c", @@ -93,61 +141,93 @@ }, { "cell_type": "code", - "execution_count": 3, + "execution_count": 5, "id": "237f6485-1960-4127-bdb1-9e160bac74b6", "metadata": {}, "outputs": [], "source": [ + "initials = {}\n", + "\n", + "# Reset the infected populations to 1 (they're set to 1/3 when stratified)\n", + "initials['susceptible_population'] = Initial(concept=Concept(name='susceptible_population'), expression=sir_init_val_norm - 3.0)\n", + "\n", + "name_map = strain_model.get_concepts_name_map()\n", + "\n", "infected_alpha = strain_model.get_concepts_name_map()['infected_population_alpha']\n", + "initials[infected_alpha.name] = Initial(concept=Concept(name=infected_alpha.name), expression=1.0)\n", + "\n", "infected_delta = strain_model.get_concepts_name_map()['infected_population_delta']\n", + "initials[infected_delta.name] = Initial(concept=Concept(name=infected_delta.name), expression=1.0)\n", + "\n", "infected_omicron = strain_model.get_concepts_name_map()['infected_population_omicron']\n", + "initials[infected_omicron.name] = Initial(concept=Concept(name=infected_omicron.name), expression=1.0)\n", + "\n", "recovered_alpha = strain_model.get_concepts_name_map()['immune_population_alpha']\n", "recovered_delta = strain_model.get_concepts_name_map()['immune_population_delta']\n", "recovered_omicron = strain_model.get_concepts_name_map()['immune_population_omicron']\n", "\n", - "# Get reinfected states and reinfected recovered states\n", + "# Get reinfected states and reinfected recovered states, set all initials to zero\n", "# alpha delta/delta alpha\n", "infected_alpha_delta = infected.with_context(history='alpha', strain='delta')\n", "infected_alpha_delta.name = 'infected_population_alpha_delta'\n", + "initials[infected_alpha_delta.name] = Initial(concept=Concept(name=infected_alpha_delta.name), expression=0.0)\n", + "\n", "infected_delta_alpha = infected.with_context(history='delta', strain='alpha')\n", "infected_delta_alpha.name = 'infected_population_delta_alpha'\n", + "initials[infected_delta_alpha.name] = Initial(concept=Concept(name=infected_delta_alpha.name), expression=0.0)\n", + "\n", "recovered_alpha_delta = recovered.with_context(history='alpha_delta')\n", "recovered_alpha_delta.name = 'immune_population_alpha_delta'\n", + "initials[recovered_alpha_delta.name] = Initial(concept=Concept(name=recovered_alpha_delta.name), expression=0.0)\n", "\n", "# alpha omicron/omicron alpha\n", "infected_alpha_omicron = infected.with_context(history='alpha', strain='omicron')\n", "infected_alpha_omicron.name = 'infected_population_alpha_omicron'\n", + "initials[infected_alpha_omicron.name] = Initial(concept=Concept(name=infected_alpha_omicron.name), expression=0.0)\n", + "\n", "infected_omicron_alpha = infected.with_context(history='omicron', strain='alpha')\n", "infected_omicron_alpha.name = 'infected_population_omicron_alpha'\n", + "initials[infected_omicron_alpha.name] = Initial(concept=Concept(name=infected_omicron_alpha.name), expression=0.0)\n", + "\n", "recovered_alpha_omicron = recovered.with_context(history='alpha_omicron')\n", "recovered_alpha_omicron.name = 'immune_population_alpha_omicron'\n", + "initials[recovered_alpha_omicron.name] = Initial(concept=Concept(name=recovered_alpha_omicron.name), expression=0.0)\n", "\n", "# delta omicron/omicron delta\n", "infected_delta_omicron = infected.with_context(history='delta', strain='omicron')\n", "infected_delta_omicron.name = 'infected_population_delta_omicron'\n", + "initials[infected_delta_omicron.name] = Initial(concept=Concept(name=infected_delta_omicron.name), expression=0.0)\n", + "\n", "infected_omicron_delta = infected.with_context(history='omicron', strain='delta')\n", "infected_omicron_delta.name = 'infected_population_omicron_delta'\n", + "initials[infected_omicron_delta.name] = Initial(concept=Concept(name=infected_omicron_delta.name), expression=0.0)\n", + "\n", "recovered_delta_omicron = recovered.with_context(strain='delta_omicron')\n", "recovered_delta_omicron.name = 'immune_population_delta_omicron'\n", + "initials[recovered_delta_omicron.name] = Initial(concept=Concept(name=recovered_delta_omicron.name), expression=0.0)\n", "\n", "# alpha delta omicron (third and final infection for any branch)\n", "infected_alpha_delta_omicron = infected.with_context(history='alpha_delta', strain='omicron')\n", "infected_alpha_delta_omicron.name = 'infected_population_alpha_delta_omicron'\n", + "initials[infected_alpha_delta_omicron.name] = Initial(concept=Concept(name=infected_alpha_delta_omicron.name), expression=0.0)\n", "\n", "infected_alpha_omicron_delta = infected.with_context(history='alpha_omicron', strain='delta')\n", "infected_alpha_omicron_delta.name = 'infected_population_alpha_omicron_delta'\n", + "initials[infected_alpha_omicron_delta.name] = Initial(concept=Concept(name=infected_alpha_omicron_delta.name), expression=0.0)\n", "\n", "infected_delta_omicron_alpha = infected.with_context(history='delta_omicron', strain='alpha')\n", "infected_delta_omicron_alpha.name = 'infected_population_delta_omicron_alpha'\n", + "initials[infected_delta_omicron_alpha.name] = Initial(concept=Concept(name=infected_delta_omicron_alpha.name), expression=0.0)\n", "\n", "recovered_alpha_delta_omicron = recovered.with_context(history='alpha_delta_omicron')\n", - "recovered_alpha_delta_omicron.name = 'immune_population_alpha_delta_omicron'" + "recovered_alpha_delta_omicron.name = 'immune_population_alpha_delta_omicron'\n", + "initials[recovered_alpha_delta_omicron.name] = Initial(concept=Concept(name=recovered_alpha_delta_omicron.name), expression=0.0)" ] }, { "cell_type": "code", - "execution_count": 4, - "id": "29221f5e-3b2b-425e-8186-1bb63f8aa54d", + "execution_count": 6, + "id": "2944a12c-f3ad-48a7-a5df-af4030fee31e", "metadata": {}, "outputs": [], "source": [ @@ -252,14 +332,53 @@ " new_parameters[param_name_rec] = Parameter(name=param_name, value=1)\n", " new_templates.append(nc)\n", "\n", - "extenstion_tm = TemplateModel(templates=new_templates, parameters=new_parameters)\n", + "extenstion_tm = TemplateModel(templates=new_templates, parameters=new_parameters, initials=initials)\n", "\n", - "total_tm = strain_model.extend(extenstion_tm, parameter_mapping=new_parameters)" + "total_tm = strain_model.extend(extenstion_tm, parameter_mapping=new_parameters, initial_mapping=initials)" ] }, { "cell_type": "code", - "execution_count": 5, + "execution_count": 7, + "id": "98642a20-9e02-4272-990b-5c3424713d75", + "metadata": {}, + "outputs": [ + { + "name": "stdout", + "output_type": "stream", + "text": [ + "susceptible_population 99997.0\n", + "infected_population_alpha 1.0\n", + "infected_population_delta 1.0\n", + "infected_population_omicron 1.0\n", + "immune_population_alpha 0\n", + "immune_population_delta 0\n", + "immune_population_omicron 0\n", + "infected_population_alpha_delta 0.0\n", + "immune_population_alpha_delta 0.0\n", + "infected_population_omicron_delta 0.0\n", + "infected_population_alpha_omicron_delta 0.0\n", + "immune_population_delta_omicron 0.0\n", + "immune_population_alpha_omicron 0.0\n", + "immune_population_alpha_delta_omicron 0.0\n", + "infected_population_delta_alpha 0.0\n", + "infected_population_omicron_alpha 0.0\n", + "infected_population_delta_omicron_alpha 0.0\n", + "infected_population_alpha_omicron 0.0\n", + "infected_population_delta_omicron 0.0\n", + "infected_population_alpha_delta_omicron 0.0\n" + ] + } + ], + "source": [ + "for name in total_tm.get_concepts_name_map():\n", + " assert name in total_tm.initials\n", + " print(name, total_tm.initials[name].expression)" + ] + }, + { + "cell_type": "code", + "execution_count": 8, "id": "8e82cfe8-a12c-43fa-b62c-93e0c1b4afc1", "metadata": {}, "outputs": [ @@ -270,7 +389,7 @@ "" ] }, - "execution_count": 5, + "execution_count": 8, "metadata": {}, "output_type": "execute_result" } @@ -284,7 +403,7 @@ " ('petrinet', template_model_to_petrinet_json)\n", "]:\n", " with open(f\"sir_3strain_{out_type}.json\", 'w') as f:\n", - " json.dump(out_fun(total_tm), f, indent=2)\n", + " json.dump(out_fun(total_tm), f, indent=1)\n", "total_tm.draw_jupyter(\"sir_3strain.png\")" ] } From eaad4bfb097c59ccab89f57c638b510f89bbfddb Mon Sep 17 00:00:00 2001 From: kkaris Date: Tue, 9 Apr 2024 08:44:01 -0700 Subject: [PATCH 2/3] Update outut models --- .../epi_scenario1/sir_3strain_petrinet.json | 3598 ++++++++++------- .../epi_scenario1/sir_3strain_regnet.json | 947 ++--- 2 files changed, 2541 insertions(+), 2004 deletions(-) diff --git a/notebooks/evaluation_2024.03/epi_scenario1/sir_3strain_petrinet.json b/notebooks/evaluation_2024.03/epi_scenario1/sir_3strain_petrinet.json index f7da5eed..f34a93de 100644 --- a/notebooks/evaluation_2024.03/epi_scenario1/sir_3strain_petrinet.json +++ b/notebooks/evaluation_2024.03/epi_scenario1/sir_3strain_petrinet.json @@ -1,1540 +1,2064 @@ { - "header": { - "name": "Model", - "schema": "https://raw.githubusercontent.com/DARPA-ASKEM/Model-Representations/petrinet_v0.6/petrinet/petrinet_schema.json", - "schema_name": "petrinet", - "description": "Model", - "model_version": "0.1" - }, - "properties": {}, - "model": { - "states": [ - { - "id": "susceptible_population", - "name": "susceptible_population", - "grounding": { - "identifiers": { - "ido": "0000514" - }, - "modifiers": {} - }, - "units": { - "expression": "person", - "expression_mathml": "person" - } - }, - { - "id": "infected_population_alpha", - "name": "infected_population_alpha", - "grounding": { - "identifiers": { - "ido": "0000511" - }, - "modifiers": { - "strain": "alpha" - } - }, - "units": { - "expression": "person", - "expression_mathml": "person" - } - }, - { - "id": "infected_population_delta", - "name": "infected_population_delta", - "grounding": { - "identifiers": { - "ido": "0000511" - }, - "modifiers": { - "strain": "delta" - } - }, - "units": { - "expression": "person", - "expression_mathml": "person" - } - }, - { - "id": "infected_population_omicron", - "name": "infected_population_omicron", - "grounding": { - "identifiers": { - "ido": "0000511" - }, - "modifiers": { - "strain": "omicron" - } - }, - "units": { - "expression": "person", - "expression_mathml": "person" - } - }, - { - "id": "immune_population_alpha", - "name": "immune_population_alpha", - "grounding": { - "identifiers": { - "ido": "0000592" - }, - "modifiers": { - "strain": "alpha" - } - }, - "units": { - "expression": "person", - "expression_mathml": "person" - } - }, - { - "id": "immune_population_delta", - "name": "immune_population_delta", - "grounding": { - "identifiers": { - "ido": "0000592" - }, - "modifiers": { - "strain": "delta" - } - }, - "units": { - "expression": "person", - "expression_mathml": "person" - } - }, - { - "id": "immune_population_omicron", - "name": "immune_population_omicron", - "grounding": { - "identifiers": { - "ido": "0000592" - }, - "modifiers": { - "strain": "omicron" - } - }, - "units": { - "expression": "person", - "expression_mathml": "person" - } - }, - { - "id": "infected_population_alpha_delta", - "name": "infected_population_alpha_delta", - "grounding": { - "identifiers": { - "ido": "0000511" - }, - "modifiers": { - "history": "alpha", - "strain": "delta" - } - }, - "units": { - "expression": "person", - "expression_mathml": "person" - } - }, - { - "id": "immune_population_alpha_delta", - "name": "immune_population_alpha_delta", - "grounding": { - "identifiers": { - "ido": "0000592" - }, - "modifiers": { - "history": "alpha_delta" - } - }, - "units": { - "expression": "person", - "expression_mathml": "person" - } - }, - { - "id": "infected_population_omicron_delta", - "name": "infected_population_omicron_delta", - "grounding": { - "identifiers": { - "ido": "0000511" - }, - "modifiers": { - "history": "omicron", - "strain": "delta" - } - }, - "units": { - "expression": "person", - "expression_mathml": "person" - } - }, - { - "id": "infected_population_alpha_omicron_delta", - "name": "infected_population_alpha_omicron_delta", - "grounding": { - "identifiers": { - "ido": "0000511" - }, - "modifiers": { - "history": "alpha_omicron", - "strain": "delta" - } - }, - "units": { - "expression": "person", - "expression_mathml": "person" - } - }, - { - "id": "immune_population_delta_omicron", - "name": "immune_population_delta_omicron", - "grounding": { - "identifiers": { - "ido": "0000592" - }, - "modifiers": { - "strain": "delta_omicron" - } - }, - "units": { - "expression": "person", - "expression_mathml": "person" - } - }, - { - "id": "immune_population_alpha_omicron", - "name": "immune_population_alpha_omicron", - "grounding": { - "identifiers": { - "ido": "0000592" - }, - "modifiers": { - "history": "alpha_omicron" - } - }, - "units": { - "expression": "person", - "expression_mathml": "person" - } - }, - { - "id": "immune_population_alpha_delta_omicron", - "name": "immune_population_alpha_delta_omicron", - "grounding": { - "identifiers": { - "ido": "0000592" - }, - "modifiers": { - "history": "alpha_delta_omicron" - } - }, - "units": { - "expression": "person", - "expression_mathml": "person" - } - }, - { - "id": "infected_population_delta_alpha", - "name": "infected_population_delta_alpha", - "grounding": { - "identifiers": { - "ido": "0000511" - }, - "modifiers": { - "history": "delta", - "strain": "alpha" - } - }, - "units": { - "expression": "person", - "expression_mathml": "person" - } - }, - { - "id": "infected_population_omicron_alpha", - "name": "infected_population_omicron_alpha", - "grounding": { - "identifiers": { - "ido": "0000511" - }, - "modifiers": { - "history": "omicron", - "strain": "alpha" - } - }, - "units": { - "expression": "person", - "expression_mathml": "person" - } - }, - { - "id": "infected_population_delta_omicron_alpha", - "name": "infected_population_delta_omicron_alpha", - "grounding": { - "identifiers": { - "ido": "0000511" - }, - "modifiers": { - "history": "delta_omicron", - "strain": "alpha" - } - }, - "units": { - "expression": "person", - "expression_mathml": "person" - } - }, - { - "id": "infected_population_alpha_omicron", - "name": "infected_population_alpha_omicron", - "grounding": { - "identifiers": { - "ido": "0000511" - }, - "modifiers": { - "history": "alpha", - "strain": "omicron" - } - }, - "units": { - "expression": "person", - "expression_mathml": "person" - } - }, - { - "id": "infected_population_delta_omicron", - "name": "infected_population_delta_omicron", - "grounding": { - "identifiers": { - "ido": "0000511" - }, - "modifiers": { - "history": "delta", - "strain": "omicron" - } - }, - "units": { - "expression": "person", - "expression_mathml": "person" - } - }, - { - "id": "infected_population_alpha_delta_omicron", - "name": "infected_population_alpha_delta_omicron", - "grounding": { - "identifiers": { - "ido": "0000511" - }, - "modifiers": { - "history": "alpha_delta", - "strain": "omicron" - } - }, - "units": { - "expression": "person", - "expression_mathml": "person" - } - } - ], - "transitions": [ - { - "id": "t1", - "input": [ - "infected_population_alpha", - "susceptible_population" - ], - "output": [ - "infected_population_alpha", - "infected_population_alpha" - ], - "properties": { - "name": "t1" - } - }, - { - "id": "t2", - "input": [ - "infected_population_delta", - "susceptible_population" - ], - "output": [ - "infected_population_delta", - "infected_population_delta" - ], - "properties": { - "name": "t2" - } - }, - { - "id": "t3", - "input": [ - "infected_population_omicron", - "susceptible_population" - ], - "output": [ - "infected_population_omicron", - "infected_population_omicron" - ], - "properties": { - "name": "t3" - } - }, - { - "id": "t4", - "input": [ - "infected_population_alpha" - ], - "output": [ - "immune_population_alpha" - ], - "properties": { - "name": "t4" - } - }, - { - "id": "t5", - "input": [ - "infected_population_delta" - ], - "output": [ - "immune_population_delta" - ], - "properties": { - "name": "t5" - } - }, - { - "id": "t6", - "input": [ - "infected_population_omicron" - ], - "output": [ - "immune_population_omicron" - ], - "properties": { - "name": "t6" - } - }, - { - "id": "t7", - "input": [ - "infected_population_delta", - "immune_population_alpha" - ], - "output": [ - "infected_population_delta", - "infected_population_alpha_delta" - ], - "properties": { - "name": "t7" - } - }, - { - "id": "t8", - "input": [ - "infected_population_alpha_delta" - ], - "output": [ - "immune_population_alpha_delta" - ], - "properties": { - "name": "t8" - } - }, - { - "id": "t9", - "input": [ - "infected_population_alpha_delta", - "immune_population_alpha" - ], - "output": [ - "infected_population_alpha_delta", - "infected_population_alpha_delta" - ], - "properties": { - "name": "t9" - } - }, - { - "id": "t10", - "input": [ - "infected_population_omicron_delta", - "immune_population_alpha" - ], - "output": [ - "infected_population_omicron_delta", - "infected_population_alpha_delta" - ], - "properties": { - "name": "t10" - } - }, - { - "id": "t11", - "input": [ - "infected_population_alpha_omicron_delta", - "immune_population_alpha" - ], - "output": [ - "infected_population_alpha_omicron_delta", - "infected_population_alpha_delta" - ], - "properties": { - "name": "t11" - } - }, - { - "id": "t12", - "input": [ - "infected_population_delta", - "immune_population_omicron" - ], - "output": [ - "infected_population_delta", - "infected_population_omicron_delta" - ], - "properties": { - "name": "t12" - } - }, - { - "id": "t13", - "input": [ - "infected_population_omicron_delta" - ], - "output": [ - "immune_population_delta_omicron" - ], - "properties": { - "name": "t13" - } - }, - { - "id": "t14", - "input": [ - "infected_population_alpha_delta", - "immune_population_omicron" - ], - "output": [ - "infected_population_alpha_delta", - "infected_population_omicron_delta" - ], - "properties": { - "name": "t14" - } - }, - { - "id": "t15", - "input": [ - "infected_population_omicron_delta", - "immune_population_omicron" - ], - "output": [ - "infected_population_omicron_delta", - "infected_population_omicron_delta" - ], - "properties": { - "name": "t15" - } - }, - { - "id": "t16", - "input": [ - "infected_population_alpha_omicron_delta", - "immune_population_omicron" - ], - "output": [ - "infected_population_alpha_omicron_delta", - "infected_population_omicron_delta" - ], - "properties": { - "name": "t16" - } - }, - { - "id": "t17", - "input": [ - "infected_population_delta", - "immune_population_alpha_omicron" - ], - "output": [ - "infected_population_delta", - "infected_population_alpha_omicron_delta" - ], - "properties": { - "name": "t17" - } - }, - { - "id": "t18", - "input": [ - "infected_population_alpha_omicron_delta" - ], - "output": [ - "immune_population_alpha_delta_omicron" - ], - "properties": { - "name": "t18" - } - }, - { - "id": "t19", - "input": [ - "infected_population_alpha_delta", - "immune_population_alpha_omicron" - ], - "output": [ - "infected_population_alpha_delta", - "infected_population_alpha_omicron_delta" - ], - "properties": { - "name": "t19" - } - }, - { - "id": "t20", - "input": [ - "infected_population_omicron_delta", - "immune_population_alpha_omicron" - ], - "output": [ - 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notebooks/evaluation_2024.03/epi_scenario1/sir_3strain_regnet.json diff --git a/notebooks/evaluation_2024.03/epi_scenario1/sir_3strain_regnet.json b/notebooks/evaluation_2024.03/epi_scenario1/sir_3strain_regnet.json deleted file mode 100644 index 38c45373..00000000 --- a/notebooks/evaluation_2024.03/epi_scenario1/sir_3strain_regnet.json +++ /dev/null @@ -1,483 +0,0 @@ -{ - "header": { - "name": "Model", - "schema": "https://raw.githubusercontent.com/DARPA-ASKEM/Model-Representations/regnet_v0.2/regnet/regnet_schema.json", - "schema_name": "regnet", - "description": "Model", - "model_version": "0.1" - }, - "model": { - "vertices": [ - { - "id": "susceptible_population", - "name": "susceptible_population", - "grounding": { - "identifiers": { - "ido": "0000514" - }, - "context": {} - }, - "initial": 99997.0 - }, - { - "id": "infected_population_alpha", - "name": "infected_population_alpha", - "grounding": { - "identifiers": { - "ido": "0000511" - }, - "context": { - "strain": "alpha" - } 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