diff --git a/.github/workflows/julia-tests.yaml b/.github/workflows/julia-tests.yaml
index 410ecd4..2651026 100644
--- a/.github/workflows/julia-tests.yaml
+++ b/.github/workflows/julia-tests.yaml
@@ -15,7 +15,8 @@ jobs:
       - uses: actions/checkout@v2
       - uses: julia-actions/setup-julia@v1
         with:
-          version: '1.9.0'
+          version: '1.9'
+      - uses: julia-actions/cache@v1
       - uses: julia-actions/julia-buildpkg@v1
       - uses: julia-actions/julia-runtest@v1
       - uses: julia-actions/julia-processcoverage@v1
diff --git a/.gitignore b/.gitignore
index 42afd83..f8ddecf 100644
--- a/.gitignore
+++ b/.gitignore
@@ -37,6 +37,7 @@ api.env
 
 ### Julia ###
 test/logs/
+Manifest.toml
 
 ### Project ###
 # Config
diff --git a/ARCHITECTURE.md b/ARCHITECTURE.md
deleted file mode 100644
index de4a5b7..0000000
--- a/ARCHITECTURE.md
+++ /dev/null
@@ -1,20 +0,0 @@
-# Architecture
-
-The Simulation Service (soon to be renamed SciML Service) is a REST API that wraps
-specific SciML tasks. The service should match the spec [here](https://github.com/DARPA-ASKEM/simulation-api-spec)
-since PyCIEMSS Service and SciML Service ideally are hot swappable.
-
-The API creates a job using the JobSchedulers.jl library and updates the Terarium Data Service (TDS) with the status 
-of the job throughout its execution. Once the job completes, the results are written to S3. With most of the output artifacts, we do little postprocessing
-after completing the SciML portion.
-
-## Layout
-
-Source is split into 5 major components:
-- `SimulationService.jl`: Contains the start and stop functions for the service
-- `Settings.jl`: Enumerates the environment variables used by the project
-- `service`: Job scheduling, pre/post-processing, endpoints, etc. Handled by TA4. 
-- `contracts`: Location where TA3 and TA4 agree on an interface between the SciML Operations and the rest of the service. 
-  - `Available.jl`: The operations available to the API are here. Generally, the operations just wrap around by the exposed SciML
-                    operations. 
-- `operations`: JuliaHub primarily focuses here.
\ No newline at end of file
diff --git a/Manifest.toml b/Manifest.toml
deleted file mode 100644
index 7175674..0000000
--- a/Manifest.toml
+++ /dev/null
@@ -1,3155 +0,0 @@
-# This file is machine-generated - editing it directly is not advised
-
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-[[deps.libvorbis_jll]]
-deps = ["Artifacts", "JLLWrappers", "Libdl", "Ogg_jll", "Pkg"]
-git-tree-sha1 = "b910cb81ef3fe6e78bf6acee440bda86fd6ae00c"
-uuid = "f27f6e37-5d2b-51aa-960f-b287f2bc3b7a"
-version = "1.3.7+1"
-
-[[deps.nghttp2_jll]]
-deps = ["Artifacts", "Libdl"]
-uuid = "8e850ede-7688-5339-a07c-302acd2aaf8d"
-version = "1.48.0+0"
-
-[[deps.p7zip_jll]]
-deps = ["Artifacts", "Libdl"]
-uuid = "3f19e933-33d8-53b3-aaab-bd5110c3b7a0"
-version = "17.4.0+0"
-
-[[deps.x264_jll]]
-deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
-git-tree-sha1 = "4fea590b89e6ec504593146bf8b988b2c00922b2"
-uuid = "1270edf5-f2f9-52d2-97e9-ab00b5d0237a"
-version = "2021.5.5+0"
-
-[[deps.x265_jll]]
-deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"]
-git-tree-sha1 = "ee567a171cce03570d77ad3a43e90218e38937a9"
-uuid = "dfaa095f-4041-5dcd-9319-2fabd8486b76"
-version = "3.5.0+0"
-
-[[deps.xkbcommon_jll]]
-deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg", "Wayland_jll", "Wayland_protocols_jll", "Xorg_libxcb_jll", "Xorg_xkeyboard_config_jll"]
-git-tree-sha1 = "9ebfc140cc56e8c2156a15ceac2f0302e327ac0a"
-uuid = "d8fb68d0-12a3-5cfd-a85a-d49703b185fd"
-version = "1.4.1+0"
diff --git a/Project.toml b/Project.toml
index 9b2bdba..55c87a3 100644
--- a/Project.toml
+++ b/Project.toml
@@ -1,47 +1,49 @@
 name = "SimulationService"
 uuid = "e66378d9-a322-4933-8764-0ce0bcab4993"
 authors = ["Five Grant <5@fivegrant.com>"]
-version = "0.6.0"
+version = "0.7.0"
 
 [deps]
 AMQPClient = "79c8b4cd-a41a-55fa-907c-fab5288e1383"
-AlgebraicPetri = "4f99eebe-17bf-4e98-b6a1-2c4f205a959b"
-Bijections = "e2ed5e7c-b2de-5872-ae92-c73ca462fb04"
 CSV = "336ed68f-0bac-5ca0-87d4-7b16caf5d00b"
-Catlab = "134e5e36-593f-5add-ad60-77f754baafbe"
 DataFrames = "a93c6f00-e57d-5684-b7b6-d8193f3e46c0"
 Dates = "ade2ca70-3891-5945-98fb-dc099432e06a"
-DiffEqCallbacks = "459566f4-90b8-5000-8ac3-15dfb0a30def"
 DifferentialEquations = "0c46a032-eb83-5123-abaf-570d42b7fbaa"
 Downloads = "f43a241f-c20a-4ad4-852c-f6b1247861c6"
-EasyModelAnalysis = "ef4b24a4-a090-4686-a932-e7e56a5a83bd"
-ForwardDiff = "f6369f11-7733-5829-9624-2563aa707210"
+EasyConfig = "acab07b0-f158-46d4-8913-50acef6d41fe"
 HTTP = "cd3eb016-35fb-5094-929b-558a96fad6f3"
-JSON = "682c06a0-de6a-54ab-a142-c8b1cf79cde6"
+InteractiveUtils = "b77e0a4c-d291-57a0-90e8-8db25a27a240"
 JSON3 = "0f8b85d8-7281-11e9-16c2-39a750bddbf1"
-JSONTables = "b9914132-a727-11e9-1322-f18e41205b0b"
 JobSchedulers = "eeff360b-c02d-44d3-ab26-4013c616a17e"
-LinearAlgebra = "37e2e46d-f89d-539d-b4ee-838fcccc9c8e"
-Logging = "56ddb016-857b-54e1-b83d-db4d58db5568"
 MathML = "abcecc63-2b08-419c-80c4-c63dca6fa478"
 ModelingToolkit = "961ee093-0014-501f-94e3-6117800e7a78"
-NamedTupleTools = "d9ec5142-1e00-5aa0-9d6a-321866360f50"
 OpenAPI = "d5e62ea6-ddf3-4d43-8e4c-ad5e6c8bfd7d"
-OpenBLAS32_jll = "656ef2d0-ae68-5445-9ca0-591084a874a2"
-OrderedCollections = "bac558e1-5e72-5ebc-8fee-abe8a469f55d"
-OrdinaryDiffEq = "1dea7af3-3e70-54e6-95c3-0bf5283fa5ed"
 Oxygen = "df9a0d86-3283-4920-82dc-4555fc0d1d8b"
-Pipelines = "ef544631-5c6f-4e9b-994c-12e7a4cd724c"
-Plots = "91a5bcdd-55d7-5caf-9e0b-520d859cae80"
-Preferences = "21216c6a-2e73-6563-6e65-726566657250"
-Reexport = "189a3867-3050-52da-a836-e630ba90ab69"
-SafeTestsets = "1bc83da4-3b8d-516f-aca4-4fe02f6d838f"
 SciMLBase = "0bca4576-84f4-4d90-8ffe-ffa030f20462"
 SwaggerMarkdown = "1b6eb727-ad4b-44eb-9669-b9596a6e760f"
-SymbolicIndexingInterface = "2efcf032-c050-4f8e-a9bb-153293bab1f5"
-Symbolics = "0c5d862f-8b57-4792-8d23-62f2024744c7"
-TerminalLoggers = "5d786b92-1e48-4d6f-9151-6b4477ca9bed"
-Test = "8dfed614-e22c-5e08-85e1-65c5234f0b40"
 UUIDs = "cf7118a7-6976-5b1a-9a39-7adc72f591a4"
-UnPack = "3a884ed6-31ef-47d7-9d2a-63182c4928ed"
 YAML = "ddb6d928-2868-570f-bddf-ab3f9cf99eb6"
+
+[compat]
+AMQPClient = "0.5"
+CSV = "0.10"
+DataFrames = "1.6"
+DifferentialEquations = "7.8"
+EasyConfig = "0.1.15"
+HTTP = "1.9"
+JSON3 = "1.13"
+JobSchedulers = "0.8"
+MathML = "0.1"
+ModelingToolkit = "8.62"
+OpenAPI = "0.1"
+Oxygen = "1.1"
+SciMLBase = "1.93"
+SwaggerMarkdown = "0.2"
+YAML = "0.4"
+julia = "1.9"
+
+[extras]
+Test = "8dfed614-e22c-5e08-85e1-65c5234f0b40"
+
+[targets]
+test = ["Test"]
diff --git a/README.md b/README.md
index cbc6b1a..8e4c6bf 100644
--- a/README.md
+++ b/README.md
@@ -1,34 +1,109 @@
-# Simulation Service
-Simulation Service provides an interface and job runner for [ASKEM models](https://github.com/DARPA-ASKEM/Model-Representations). 
+# SimulationService.jl
 
-See example payload at [./examples/request.json](./examples/request.json)
+Simulation Service runs a REST API for running jobs in the [ASKEM Model Representation](https://github.com/DARPA-ASKEM/Model-Representations).
 
-## Usage
+See example payloads in the `./examples` directory.
+
+## Development Environment
+
+```julia
+using Revise  # auto-update the server with your changes
+using SimulationService
+SimulationService.SIMSERVICE_ENABLE_TDS = false  # opt out of Terrarium Data Service
+
+start!()  # run server
+
+# make code changes that you want to test...
+
+start!()  # Replaces the running server with your changes
+```
+
+## Run Server via Docker
 
-With docker compose: 
 ```
 docker compose --file docker/docker-compose.yml up --build
 ```
 
-With Julia REPL assuming you want to run it standalone:
+## Example Request with Local Server in Julia
+
+```julia
+using SimulationService, HTTP, JSON3, EasyConfig
+
+# Start the server/job scheduler without Terrarium Data Service
+SimulationService.SIMSERVICE_ENABLE_TDS = false
+start!()
+
+url = SimulationService.server_url[]  # server url
+@info JSON3.read(HTTP.get(url).body) # Is server running? (status == "ok")
+
+# JSON in ASKEM Model Representation
+model = JSON3.read(read("./examples/BIOMD0000000955_askenet.json"), Config)
+
+# You can directly provide AMR JSON with the `test_amr` key
+# (Note: this does not look like a request that would be seen in production)
+json = Config(model = model, timespan=(0, 90))
+
+body = JSON3.write(json)
+
+# Kick off the simulation job
+res = HTTP.post("$url/simulate", ["Content-Type" => "application/json"]; body=body)
 
+# Get the `job_id` so we can query the job status and get results
+job_id = JSON3.read(res.body).simulation_id
+
+# Re-run this until `status_obj.status == "done"`
+status = JSON3.read(HTTP.get("$url/jobs/status/$job_id").body)
+
+# close down server and scheduler
+stop!()
 ```
->> export ENABLE_TDS=false # Include if you would like to disable backend services
->> julia --project --threads 15 # We need multithreading
-julia> using SimulationService, HTTP
-julia> import JSON3 as JSON
-julia> start!()
-julia> model_json = String(read("./examples/BIOMD0000000955_askenet.json"))
-julia> # Let's do a simulate
-julia> operation = "simulate"
-julia> operation_args = Dict(:model=> model_json, :timespan => Dict("start" => 0, "end" => 90)) # should match up to what's in Availble.jl
-julia> simulation = SimulationService.make_deterministic_run(operation_args, operation)
-julia> simulation_id = JSON.read(String(simulation.body)).simulation_id
-julia> status = SimulationService.retrieve_job(nothing, simulation_id, "status") # rerun until complete
-julia> result = SimulationService.retrieve_job(nothing, simulation_id, "result")
-julia> # output of REST API and Scheduler
-julia> stop!()
-julia> # you may safely leave the repl or rerun `start!`
-````
-
-To check available endpoints, try checking [localhost:8080/docs](localhost:8080/docs)
+
+## Incoming Requests
+
+The OpenAPI spec [here](https://raw.githubusercontent.com/DARPA-ASKEM/simulation-api-spec/main/openapi.yaml) is the source of truth.  See the JSON files in `./examples` that begin with `request-...`.
+
+Here's a summary of what the JSON should like in a request:
+
+1. Every request should contain `"engine": "sciml"`
+2. Endpoint-specific keys:
+    - `/simulate`
+        - Required: `model_config_id`, `timespan`
+        - Optional: `extra`
+    - `/calibrate`
+        - Required: `model_config_id`, `dataset`
+        - Optional: `extra`, `timespan`
+    - `/ensemble`
+        - Required: `model_config_ids`, `timespan`
+        - Optional: `extra`
+3. Additional keys (for testing/when TDS is disabled).
+    - `csv`: A String containing the contents of a CSV file.
+    - `local_csv`: The file path of a CSV file, local to where the server is running.
+    - `model`: JSON object in the The ASKEM Model Representation (AMR) format.
+
+### How Incoming Requests are Processed
+
+An incoming `HTTP.Request` gets turned into a `SimulationService.OperationRequest` object that holds
+all the necessary info for running/solving the model and returning results.
+
+
+1. Request arrives
+2. We process the keys into useful things for `OperationRequest`
+    - `model_config_id(s)` --> Retrieve model(s) in AMR format from TDS (`model::Config` in `OperationRequest`).
+    - `dataset` --> Retrieve dataset from TDS (`df::DataFrame` in `OperationRequest`).
+3. We start the job via JobSchedulers.jl, which performs:
+    - Update job status in TDS to "running".
+    - Run/solve the model/simulation.
+    - Upload results to S3.
+    - Update job status in TDS to "complete".
+4. Return a 201 response (above job runs async) with JSON that holds the `simulation_id` (client's term), which we call `job_id`.
+
+
+## Architecture
+
+The Simulation Service (soon to be renamed SciML Service) is a REST API that wraps
+specific SciML tasks. The service should match the spec [here](https://github.com/DARPA-ASKEM/simulation-api-spec)
+since PyCIEMSS Service and SciML Service ideally are hot swappable.
+
+The API creates a job using the JobSchedulers.jl library and updates the Terarium Data Service (TDS) with the status
+of the job throughout its execution. Once the job completes, the results are written to S3. With most of the output artifacts, we do little postprocessing
+after completing the SciML portion.
diff --git a/examples/BIOMD0000000955_askenet.json b/examples/BIOMD0000000955_askenet.json
index a1b78f7..afa448f 100644
--- a/examples/BIOMD0000000955_askenet.json
+++ b/examples/BIOMD0000000955_askenet.json
@@ -1,693 +1,693 @@
 {
- "name": "Giordano2020 - SIDARTHE model of COVID-19 spread in Italy",
- "schema": "https://raw.githubusercontent.com/DARPA-ASKEM/Model-Representations/petrinet_v0.5/petrinet/petrinet_schema.json",
- "schema_name": "petrinet",
- "description": "Giordano2020 - SIDARTHE model of COVID-19 spread in Italy",
- "model_version": "0.1",
- "properties": {},
- "model": {
-  "states": [
-   {
-    "id": "Susceptible",
-    "name": "Susceptible",
-    "grounding": {
-     "identifiers": {
-      "ido": "0000514"
-     },
-     "modifiers": {}
-    },
-    "units": {
-     "expression": "1",
-     "expression_mathml": "<cn>1</cn>"
-    }
-   },
-   {
-    "id": "Diagnosed",
-    "name": "Diagnosed",
-    "grounding": {
-     "identifiers": {
-      "ido": "0000511"
-     },
-     "modifiers": {
-      "diagnosis": "ncit:C15220"
-     }
-    },
-    "units": {
-     "expression": "1",
-     "expression_mathml": "<cn>1</cn>"
-    }
-   },
-   {
-    "id": "Infected",
-    "name": "Infected",
-    "grounding": {
-     "identifiers": {
-      "ido": "0000511"
-     },
-     "modifiers": {}
-    },
-    "units": {
-     "expression": "1",
-     "expression_mathml": "<cn>1</cn>"
-    }
-   },
-   {
-    "id": "Ailing",
-    "name": "Ailing",
-    "grounding": {
-     "identifiers": {
-      "ido": "0000511"
-     },
-     "modifiers": {
-      "disease_severity": "ncit:C25269",
-      "diagnosis": "ncit:C113725"
-     }
-    },
-    "units": {
-     "expression": "1",
-     "expression_mathml": "<cn>1</cn>"
-    }
-   },
-   {
-    "id": "Recognized",
-    "name": "Recognized",
-    "grounding": {
-     "identifiers": {
-      "ido": "0000511"
-     },
-     "modifiers": {
-      "diagnosis": "ncit:C15220"
-     }
-    },
-    "units": {
-     "expression": "1",
-     "expression_mathml": "<cn>1</cn>"
-    }
-   },
-   {
-    "id": "Healed",
-    "name": "Healed",
-    "grounding": {
-     "identifiers": {
-      "ido": "0000592"
-     },
-     "modifiers": {}
-    },
-    "units": {
-     "expression": "1",
-     "expression_mathml": "<cn>1</cn>"
-    }
-   },
-   {
-    "id": "Threatened",
-    "name": "Threatened",
-    "grounding": {
-     "identifiers": {
-      "ido": "0000511"
-     },
-     "modifiers": {
-      "disease_severity": "ncit:C25467"
-     }
-    },
-    "units": {
-     "expression": "1",
-     "expression_mathml": "<cn>1</cn>"
-    }
-   },
-   {
-    "id": "Extinct",
-    "name": "Extinct",
-    "grounding": {
-     "identifiers": {
-      "ncit": "C28554"
-     },
-     "modifiers": {}
-    },
-    "units": {
-     "expression": "1",
-     "expression_mathml": "<cn>1</cn>"
-    }
-   }
-  ],
-  "transitions": [
-   {
-    "id": "t1",
-    "input": [
-     "Diagnosed",
-     "Susceptible"
-    ],
-    "output": [
-     "Diagnosed",
-     "Infected"
-    ],
-    "properties": {
-     "name": "t1"
-    }
-   },
-   {
-    "id": "t2",
-    "input": [
-     "Ailing",
-     "Susceptible"
-    ],
-    "output": [
-     "Ailing",
-     "Infected"
-    ],
-    "properties": {
-     "name": "t2"
-    }
-   },
-   {
-    "id": "t3",
-    "input": [
-     "Recognized",
-     "Susceptible"
-    ],
-    "output": [
-     "Recognized",
-     "Infected"
-    ],
-    "properties": {
-     "name": "t3"
-    }
-   },
-   {
-    "id": "t4",
-    "input": [
-     "Infected",
-     "Susceptible"
-    ],
-    "output": [
-     "Infected",
-     "Infected"
-    ],
-    "properties": {
-     "name": "t4"
-    }
-   },
-   {
-    "id": "t5",
-    "input": [
-     "Infected"
-    ],
-    "output": [
-     "Diagnosed"
-    ],
-    "properties": {
-     "name": "t5"
-    }
-   },
-   {
-    "id": "t6",
-    "input": [
-     "Infected"
-    ],
-    "output": [
-     "Ailing"
-    ],
-    "properties": {
-     "name": "t6"
-    }
-   },
-   {
-    "id": "t7",
-    "input": [
-     "Infected"
-    ],
-    "output": [
-     "Healed"
-    ],
-    "properties": {
-     "name": "t7"
-    }
-   },
-   {
-    "id": "t8",
-    "input": [
-     "Diagnosed"
-    ],
-    "output": [
-     "Recognized"
-    ],
-    "properties": {
-     "name": "t8"
-    }
-   },
-   {
-    "id": "t9",
-    "input": [
-     "Diagnosed"
-    ],
-    "output": [
-     "Healed"
-    ],
-    "properties": {
-     "name": "t9"
-    }
-   },
-   {
-    "id": "t10",
-    "input": [
-     "Ailing"
-    ],
-    "output": [
-     "Recognized"
-    ],
-    "properties": {
-     "name": "t10"
-    }
-   },
-   {
-    "id": "t11",
-    "input": [
-     "Ailing"
-    ],
-    "output": [
-     "Healed"
-    ],
-    "properties": {
-     "name": "t11"
-    }
-   },
-   {
-    "id": "t12",
-    "input": [
-     "Ailing"
-    ],
-    "output": [
-     "Threatened"
-    ],
-    "properties": {
-     "name": "t12"
-    }
-   },
-   {
-    "id": "t13",
-    "input": [
-     "Recognized"
-    ],
-    "output": [
-     "Threatened"
-    ],
-    "properties": {
-     "name": "t13"
-    }
-   },
-   {
-    "id": "t14",
-    "input": [
-     "Recognized"
-    ],
-    "output": [
-     "Healed"
-    ],
-    "properties": {
-     "name": "t14"
-    }
-   },
-   {
-    "id": "t15",
-    "input": [
-     "Threatened"
-    ],
-    "output": [
-     "Extinct"
-    ],
-    "properties": {
-     "name": "t15"
-    }
-   },
-   {
-    "id": "t16",
-    "input": [
-     "Threatened"
-    ],
-    "output": [
-     "Healed"
-    ],
-    "properties": {
-     "name": "t16"
-    }
-   }
-  ]
- },
- "semantics": {
-  "ode": {
-   "rates": [
-    {
-     "target": "t1",
-     "expression": "Diagnosed*Susceptible*beta",
-     "expression_mathml": "<apply><times/><ci>Diagnosed</ci><ci>Susceptible</ci><ci>beta</ci></apply>"
-    },
-    {
-     "target": "t2",
-     "expression": "Ailing*Susceptible*gamma",
-     "expression_mathml": "<apply><times/><ci>Ailing</ci><ci>Susceptible</ci><ci>gamma</ci></apply>"
-    },
-    {
-     "target": "t3",
-     "expression": "Recognized*Susceptible*delta",
-     "expression_mathml": "<apply><times/><ci>Recognized</ci><ci>Susceptible</ci><ci>delta</ci></apply>"
-    },
-    {
-     "target": "t4",
-     "expression": "Infected*Susceptible*alpha",
-     "expression_mathml": "<apply><times/><ci>Infected</ci><ci>Susceptible</ci><ci>alpha</ci></apply>"
-    },
-    {
-     "target": "t5",
-     "expression": "Infected*epsilon",
-     "expression_mathml": "<apply><times/><ci>Infected</ci><ci>epsilon</ci></apply>"
-    },
-    {
-     "target": "t6",
-     "expression": "Infected*zeta",
-     "expression_mathml": "<apply><times/><ci>Infected</ci><ci>zeta</ci></apply>"
-    },
-    {
-     "target": "t7",
-     "expression": "Infected*lambda",
-     "expression_mathml": "<apply><times/><ci>Infected</ci><ci>lambda</ci></apply>"
-    },
-    {
-     "target": "t8",
-     "expression": "Diagnosed*eta",
-     "expression_mathml": "<apply><times/><ci>Diagnosed</ci><ci>eta</ci></apply>"
-    },
-    {
-     "target": "t9",
-     "expression": "Diagnosed*rho",
-     "expression_mathml": "<apply><times/><ci>Diagnosed</ci><ci>rho</ci></apply>"
-    },
-    {
-     "target": "t10",
-     "expression": "Ailing*theta",
-     "expression_mathml": "<apply><times/><ci>Ailing</ci><ci>theta</ci></apply>"
-    },
-    {
-     "target": "t11",
-     "expression": "Ailing*kappa",
-     "expression_mathml": "<apply><times/><ci>Ailing</ci><ci>kappa</ci></apply>"
-    },
-    {
-     "target": "t12",
-     "expression": "Ailing*mu",
-     "expression_mathml": "<apply><times/><ci>Ailing</ci><ci>mu</ci></apply>"
-    },
-    {
-     "target": "t13",
-     "expression": "Recognized*nu",
-     "expression_mathml": "<apply><times/><ci>Recognized</ci><ci>nu</ci></apply>"
-    },
-    {
-     "target": "t14",
-     "expression": "Recognized*xi",
-     "expression_mathml": "<apply><times/><ci>Recognized</ci><ci>xi</ci></apply>"
-    },
-    {
-     "target": "t15",
-     "expression": "Threatened*tau",
-     "expression_mathml": "<apply><times/><ci>Threatened</ci><ci>tau</ci></apply>"
-    },
-    {
-     "target": "t16",
-     "expression": "Threatened*sigma",
-     "expression_mathml": "<apply><times/><ci>Threatened</ci><ci>sigma</ci></apply>"
-    }
-   ],
-   "initials": [
-    {
-     "target": "Susceptible",
-     "expression": "0.999996300000000",
-     "expression_mathml": "<cn>0.99999629999999995</cn>"
-    },
-    {
-     "target": "Diagnosed",
-     "expression": "3.33333333000000e-7",
-     "expression_mathml": "<cn>3.33333333e-7</cn>"
-    },
-    {
-     "target": "Infected",
-     "expression": "3.33333333000000e-6",
-     "expression_mathml": "<cn>3.3333333299999999e-6</cn>"
-    },
-    {
-     "target": "Ailing",
-     "expression": "1.66666666000000e-8",
-     "expression_mathml": "<cn>1.6666666599999999e-8</cn>"
-    },
-    {
-     "target": "Recognized",
-     "expression": "3.33333333000000e-8",
-     "expression_mathml": "<cn>3.33333333e-8</cn>"
-    },
-    {
-     "target": "Healed",
-     "expression": "0.0",
-     "expression_mathml": "<cn>0.0</cn>"
-    },
-    {
-     "target": "Threatened",
-     "expression": "0.0",
-     "expression_mathml": "<cn>0.0</cn>"
-    },
-    {
-     "target": "Extinct",
-     "expression": "0.0",
-     "expression_mathml": "<cn>0.0</cn>"
-    }
-   ],
-   "parameters": [
-    {
-     "id": "beta",
-     "value": 0.011,
-     "distribution": {
-      "type": "StandardUniform1",
-      "parameters": {
-       "minimum": 0.008799999999999999,
-       "maximum": 0.0132
+    "name": "Giordano2020 - SIDARTHE model of COVID-19 spread in Italy",
+    "schema": "https://raw.githubusercontent.com/DARPA-ASKEM/Model-Representations/petrinet_v0.5/petrinet/petrinet_schema.json",
+    "schema_name": "petrinet",
+    "description": "Giordano2020 - SIDARTHE model of COVID-19 spread in Italy",
+    "model_version": "0.1",
+    "properties": {},
+    "model": {
+     "states": [
+      {
+       "id": "Susceptible",
+       "name": "Susceptible",
+       "grounding": {
+        "identifiers": {
+         "ido": "0000514"
+        },
+        "modifiers": {}
+       },
+       "units": {
+        "expression": "1",
+        "expression_mathml": "<cn>1</cn>"
+       }
+      },
+      {
+       "id": "Diagnosed",
+       "name": "Diagnosed",
+       "grounding": {
+        "identifiers": {
+         "ido": "0000511"
+        },
+        "modifiers": {
+         "diagnosis": "ncit:C15220"
+        }
+       },
+       "units": {
+        "expression": "1",
+        "expression_mathml": "<cn>1</cn>"
+       }
+      },
+      {
+       "id": "Infected",
+       "name": "Infected",
+       "grounding": {
+        "identifiers": {
+         "ido": "0000511"
+        },
+        "modifiers": {}
+       },
+       "units": {
+        "expression": "1",
+        "expression_mathml": "<cn>1</cn>"
+       }
+      },
+      {
+       "id": "Ailing",
+       "name": "Ailing",
+       "grounding": {
+        "identifiers": {
+         "ido": "0000511"
+        },
+        "modifiers": {
+         "disease_severity": "ncit:C25269",
+         "diagnosis": "ncit:C113725"
+        }
+       },
+       "units": {
+        "expression": "1",
+        "expression_mathml": "<cn>1</cn>"
+       }
+      },
+      {
+       "id": "Recognized",
+       "name": "Recognized",
+       "grounding": {
+        "identifiers": {
+         "ido": "0000511"
+        },
+        "modifiers": {
+         "diagnosis": "ncit:C15220"
+        }
+       },
+       "units": {
+        "expression": "1",
+        "expression_mathml": "<cn>1</cn>"
+       }
+      },
+      {
+       "id": "Healed",
+       "name": "Healed",
+       "grounding": {
+        "identifiers": {
+         "ido": "0000592"
+        },
+        "modifiers": {}
+       },
+       "units": {
+        "expression": "1",
+        "expression_mathml": "<cn>1</cn>"
+       }
+      },
+      {
+       "id": "Threatened",
+       "name": "Threatened",
+       "grounding": {
+        "identifiers": {
+         "ido": "0000511"
+        },
+        "modifiers": {
+         "disease_severity": "ncit:C25467"
+        }
+       },
+       "units": {
+        "expression": "1",
+        "expression_mathml": "<cn>1</cn>"
+       }
+      },
+      {
+       "id": "Extinct",
+       "name": "Extinct",
+       "grounding": {
+        "identifiers": {
+         "ncit": "C28554"
+        },
+        "modifiers": {}
+       },
+       "units": {
+        "expression": "1",
+        "expression_mathml": "<cn>1</cn>"
+       }
       }
-     }
-    },
-    {
-     "id": "gamma",
-     "value": 0.456,
-     "distribution": {
-      "type": "StandardUniform1",
-      "parameters": {
-       "minimum": 0.3648,
-       "maximum": 0.5472
+     ],
+     "transitions": [
+      {
+       "id": "t1",
+       "input": [
+        "Diagnosed",
+        "Susceptible"
+       ],
+       "output": [
+        "Diagnosed",
+        "Infected"
+       ],
+       "properties": {
+        "name": "t1"
+       }
+      },
+      {
+       "id": "t2",
+       "input": [
+        "Ailing",
+        "Susceptible"
+       ],
+       "output": [
+        "Ailing",
+        "Infected"
+       ],
+       "properties": {
+        "name": "t2"
+       }
+      },
+      {
+       "id": "t3",
+       "input": [
+        "Recognized",
+        "Susceptible"
+       ],
+       "output": [
+        "Recognized",
+        "Infected"
+       ],
+       "properties": {
+        "name": "t3"
+       }
+      },
+      {
+       "id": "t4",
+       "input": [
+        "Infected",
+        "Susceptible"
+       ],
+       "output": [
+        "Infected",
+        "Infected"
+       ],
+       "properties": {
+        "name": "t4"
+       }
+      },
+      {
+       "id": "t5",
+       "input": [
+        "Infected"
+       ],
+       "output": [
+        "Diagnosed"
+       ],
+       "properties": {
+        "name": "t5"
+       }
+      },
+      {
+       "id": "t6",
+       "input": [
+        "Infected"
+       ],
+       "output": [
+        "Ailing"
+       ],
+       "properties": {
+        "name": "t6"
+       }
+      },
+      {
+       "id": "t7",
+       "input": [
+        "Infected"
+       ],
+       "output": [
+        "Healed"
+       ],
+       "properties": {
+        "name": "t7"
+       }
+      },
+      {
+       "id": "t8",
+       "input": [
+        "Diagnosed"
+       ],
+       "output": [
+        "Recognized"
+       ],
+       "properties": {
+        "name": "t8"
+       }
+      },
+      {
+       "id": "t9",
+       "input": [
+        "Diagnosed"
+       ],
+       "output": [
+        "Healed"
+       ],
+       "properties": {
+        "name": "t9"
+       }
+      },
+      {
+       "id": "t10",
+       "input": [
+        "Ailing"
+       ],
+       "output": [
+        "Recognized"
+       ],
+       "properties": {
+        "name": "t10"
+       }
+      },
+      {
+       "id": "t11",
+       "input": [
+        "Ailing"
+       ],
+       "output": [
+        "Healed"
+       ],
+       "properties": {
+        "name": "t11"
+       }
+      },
+      {
+       "id": "t12",
+       "input": [
+        "Ailing"
+       ],
+       "output": [
+        "Threatened"
+       ],
+       "properties": {
+        "name": "t12"
+       }
+      },
+      {
+       "id": "t13",
+       "input": [
+        "Recognized"
+       ],
+       "output": [
+        "Threatened"
+       ],
+       "properties": {
+        "name": "t13"
+       }
+      },
+      {
+       "id": "t14",
+       "input": [
+        "Recognized"
+       ],
+       "output": [
+        "Healed"
+       ],
+       "properties": {
+        "name": "t14"
+       }
+      },
+      {
+       "id": "t15",
+       "input": [
+        "Threatened"
+       ],
+       "output": [
+        "Extinct"
+       ],
+       "properties": {
+        "name": "t15"
+       }
+      },
+      {
+       "id": "t16",
+       "input": [
+        "Threatened"
+       ],
+       "output": [
+        "Healed"
+       ],
+       "properties": {
+        "name": "t16"
+       }
       }
-     }
-    },
-    {
-     "id": "delta",
-     "value": 0.011,
-     "distribution": {
-      "type": "StandardUniform1",
-      "parameters": {
-       "minimum": 0.008799999999999999,
-       "maximum": 0.0132
+     ]
+    },
+    "semantics": {
+     "ode": {
+      "rates": [
+       {
+        "target": "t1",
+        "expression": "Diagnosed*Susceptible*beta",
+        "expression_mathml": "<apply><times/><ci>Diagnosed</ci><ci>Susceptible</ci><ci>beta</ci></apply>"
+       },
+       {
+        "target": "t2",
+        "expression": "Ailing*Susceptible*gamma",
+        "expression_mathml": "<apply><times/><ci>Ailing</ci><ci>Susceptible</ci><ci>gamma</ci></apply>"
+       },
+       {
+        "target": "t3",
+        "expression": "Recognized*Susceptible*delta",
+        "expression_mathml": "<apply><times/><ci>Recognized</ci><ci>Susceptible</ci><ci>delta</ci></apply>"
+       },
+       {
+        "target": "t4",
+        "expression": "Infected*Susceptible*alpha",
+        "expression_mathml": "<apply><times/><ci>Infected</ci><ci>Susceptible</ci><ci>alpha</ci></apply>"
+       },
+       {
+        "target": "t5",
+        "expression": "Infected*epsilon",
+        "expression_mathml": "<apply><times/><ci>Infected</ci><ci>epsilon</ci></apply>"
+       },
+       {
+        "target": "t6",
+        "expression": "Infected*zeta",
+        "expression_mathml": "<apply><times/><ci>Infected</ci><ci>zeta</ci></apply>"
+       },
+       {
+        "target": "t7",
+        "expression": "Infected*lambda",
+        "expression_mathml": "<apply><times/><ci>Infected</ci><ci>lambda</ci></apply>"
+       },
+       {
+        "target": "t8",
+        "expression": "Diagnosed*eta",
+        "expression_mathml": "<apply><times/><ci>Diagnosed</ci><ci>eta</ci></apply>"
+       },
+       {
+        "target": "t9",
+        "expression": "Diagnosed*rho",
+        "expression_mathml": "<apply><times/><ci>Diagnosed</ci><ci>rho</ci></apply>"
+       },
+       {
+        "target": "t10",
+        "expression": "Ailing*theta",
+        "expression_mathml": "<apply><times/><ci>Ailing</ci><ci>theta</ci></apply>"
+       },
+       {
+        "target": "t11",
+        "expression": "Ailing*kappa",
+        "expression_mathml": "<apply><times/><ci>Ailing</ci><ci>kappa</ci></apply>"
+       },
+       {
+        "target": "t12",
+        "expression": "Ailing*mu",
+        "expression_mathml": "<apply><times/><ci>Ailing</ci><ci>mu</ci></apply>"
+       },
+       {
+        "target": "t13",
+        "expression": "Recognized*nu",
+        "expression_mathml": "<apply><times/><ci>Recognized</ci><ci>nu</ci></apply>"
+       },
+       {
+        "target": "t14",
+        "expression": "Recognized*xi",
+        "expression_mathml": "<apply><times/><ci>Recognized</ci><ci>xi</ci></apply>"
+       },
+       {
+        "target": "t15",
+        "expression": "Threatened*tau",
+        "expression_mathml": "<apply><times/><ci>Threatened</ci><ci>tau</ci></apply>"
+       },
+       {
+        "target": "t16",
+        "expression": "Threatened*sigma",
+        "expression_mathml": "<apply><times/><ci>Threatened</ci><ci>sigma</ci></apply>"
+       }
+      ],
+      "initials": [
+       {
+        "target": "Susceptible",
+        "expression": "0.999996300000000",
+        "expression_mathml": "<cn>0.99999629999999995</cn>"
+       },
+       {
+        "target": "Diagnosed",
+        "expression": "3.33333333000000e-7",
+        "expression_mathml": "<cn>3.33333333e-7</cn>"
+       },
+       {
+        "target": "Infected",
+        "expression": "3.33333333000000e-6",
+        "expression_mathml": "<cn>3.3333333299999999e-6</cn>"
+       },
+       {
+        "target": "Ailing",
+        "expression": "1.66666666000000e-8",
+        "expression_mathml": "<cn>1.6666666599999999e-8</cn>"
+       },
+       {
+        "target": "Recognized",
+        "expression": "3.33333333000000e-8",
+        "expression_mathml": "<cn>3.33333333e-8</cn>"
+       },
+       {
+        "target": "Healed",
+        "expression": "0.0",
+        "expression_mathml": "<cn>0.0</cn>"
+       },
+       {
+        "target": "Threatened",
+        "expression": "0.0",
+        "expression_mathml": "<cn>0.0</cn>"
+       },
+       {
+        "target": "Extinct",
+        "expression": "0.0",
+        "expression_mathml": "<cn>0.0</cn>"
+       }
+      ],
+      "parameters": [
+       {
+        "id": "beta",
+        "value": 0.011,
+        "distribution": {
+         "type": "StandardUniform1",
+         "parameters": {
+          "minimum": 0.008799999999999999,
+          "maximum": 0.0132
+         }
+        }
+       },
+       {
+        "id": "gamma",
+        "value": 0.456,
+        "distribution": {
+         "type": "StandardUniform1",
+         "parameters": {
+          "minimum": 0.3648,
+          "maximum": 0.5472
+         }
+        }
+       },
+       {
+        "id": "delta",
+        "value": 0.011,
+        "distribution": {
+         "type": "StandardUniform1",
+         "parameters": {
+          "minimum": 0.008799999999999999,
+          "maximum": 0.0132
+         }
+        }
+       },
+       {
+        "id": "alpha",
+        "value": 0.57,
+        "distribution": {
+         "type": "StandardUniform1",
+         "parameters": {
+          "minimum": 0.45599999999999996,
+          "maximum": 0.6839999999999999
+         }
+        }
+       },
+       {
+        "id": "epsilon",
+        "value": 0.171,
+        "distribution": {
+         "type": "StandardUniform1",
+         "parameters": {
+          "minimum": 0.1368,
+          "maximum": 0.20520000000000002
+         }
+        }
+       },
+       {
+        "id": "zeta",
+        "value": 0.125,
+        "distribution": {
+         "type": "StandardUniform1",
+         "parameters": {
+          "minimum": 0.1,
+          "maximum": 0.15
+         }
+        }
+       },
+       {
+        "id": "lambda",
+        "value": 0.034,
+        "distribution": {
+         "type": "StandardUniform1",
+         "parameters": {
+          "minimum": 0.027200000000000002,
+          "maximum": 0.0408
+         }
+        }
+       },
+       {
+        "id": "eta",
+        "value": 0.125,
+        "distribution": {
+         "type": "StandardUniform1",
+         "parameters": {
+          "minimum": 0.1,
+          "maximum": 0.15
+         }
+        }
+       },
+       {
+        "id": "rho",
+        "value": 0.034,
+        "distribution": {
+         "type": "StandardUniform1",
+         "parameters": {
+          "minimum": 0.027200000000000002,
+          "maximum": 0.0408
+         }
+        }
+       },
+       {
+        "id": "theta",
+        "value": 0.371,
+        "distribution": {
+         "type": "StandardUniform1",
+         "parameters": {
+          "minimum": 0.2968,
+          "maximum": 0.4452
+         }
+        }
+       },
+       {
+        "id": "kappa",
+        "value": 0.017,
+        "distribution": {
+         "type": "StandardUniform1",
+         "parameters": {
+          "minimum": 0.013600000000000001,
+          "maximum": 0.0204
+         }
+        }
+       },
+       {
+        "id": "mu",
+        "value": 0.017,
+        "distribution": {
+         "type": "StandardUniform1",
+         "parameters": {
+          "minimum": 0.013600000000000001,
+          "maximum": 0.0204
+         }
+        }
+       },
+       {
+        "id": "nu",
+        "value": 0.027,
+        "distribution": {
+         "type": "StandardUniform1",
+         "parameters": {
+          "minimum": 0.0216,
+          "maximum": 0.0324
+         }
+        }
+       },
+       {
+        "id": "xi",
+        "value": 0.017,
+        "distribution": {
+         "type": "StandardUniform1",
+         "parameters": {
+          "minimum": 0.013600000000000001,
+          "maximum": 0.0204
+         }
+        }
+       },
+       {
+        "id": "tau",
+        "value": 0.01,
+        "distribution": {
+         "type": "StandardUniform1",
+         "parameters": {
+          "minimum": 0.008,
+          "maximum": 0.012
+         }
+        }
+       },
+       {
+        "id": "sigma",
+        "value": 0.017,
+        "distribution": {
+         "type": "StandardUniform1",
+         "parameters": {
+          "minimum": 0.013600000000000001,
+          "maximum": 0.0204
+         }
+        }
+       }
+      ],
+      "observables": [
+       {
+        "id": "Cases",
+        "name": "Cases",
+        "expression": "Diagnosed + Recognized + Threatened",
+        "expression_mathml": "<apply><plus/><ci>Diagnosed</ci><ci>Recognized</ci><ci>Threatened</ci></apply>"
+       },
+       {
+        "id": "Hospitalizations",
+        "name": "Hospitalizations",
+        "expression": "Recognized + Threatened",
+        "expression_mathml": "<apply><plus/><ci>Recognized</ci><ci>Threatened</ci></apply>"
+       },
+       {
+        "id": "Deaths",
+        "name": "Deaths",
+        "expression": "Extinct",
+        "expression_mathml": "<ci>Extinct</ci>"
+       }
+      ],
+      "time": {
+       "id": "t",
+       "units": {
+        "expression": "day",
+        "expression_mathml": "<ci>day</ci>"
+       }
       }
      }
     },
-    {
-     "id": "alpha",
-     "value": 0.57,
-     "distribution": {
-      "type": "StandardUniform1",
-      "parameters": {
-       "minimum": 0.45599999999999996,
-       "maximum": 0.6839999999999999
-      }
+    "metadata": {
+     "annotations": {
+      "license": "CC0",
+      "authors": [],
+      "references": [
+       "pubmed:32322102"
+      ],
+      "time_scale": null,
+      "time_start": null,
+      "time_end": null,
+      "locations": [],
+      "pathogens": [
+       "ncbitaxon:2697049"
+      ],
+      "diseases": [
+       "doid:0080600"
+      ],
+      "hosts": [
+       "ncbitaxon:9606"
+      ],
+      "model_types": [
+       "mamo:0000028"
+      ]
      }
-    },
-    {
-     "id": "epsilon",
-     "value": 0.171,
-     "distribution": {
-      "type": "StandardUniform1",
-      "parameters": {
-       "minimum": 0.1368,
-       "maximum": 0.20520000000000002
-      }
-     }
-    },
-    {
-     "id": "zeta",
-     "value": 0.125,
-     "distribution": {
-      "type": "StandardUniform1",
-      "parameters": {
-       "minimum": 0.1,
-       "maximum": 0.15
-      }
-     }
-    },
-    {
-     "id": "lambda",
-     "value": 0.034,
-     "distribution": {
-      "type": "StandardUniform1",
-      "parameters": {
-       "minimum": 0.027200000000000002,
-       "maximum": 0.0408
-      }
-     }
-    },
-    {
-     "id": "eta",
-     "value": 0.125,
-     "distribution": {
-      "type": "StandardUniform1",
-      "parameters": {
-       "minimum": 0.1,
-       "maximum": 0.15
-      }
-     }
-    },
-    {
-     "id": "rho",
-     "value": 0.034,
-     "distribution": {
-      "type": "StandardUniform1",
-      "parameters": {
-       "minimum": 0.027200000000000002,
-       "maximum": 0.0408
-      }
-     }
-    },
-    {
-     "id": "theta",
-     "value": 0.371,
-     "distribution": {
-      "type": "StandardUniform1",
-      "parameters": {
-       "minimum": 0.2968,
-       "maximum": 0.4452
-      }
-     }
-    },
-    {
-     "id": "kappa",
-     "value": 0.017,
-     "distribution": {
-      "type": "StandardUniform1",
-      "parameters": {
-       "minimum": 0.013600000000000001,
-       "maximum": 0.0204
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-     }
-    },
-    {
-     "id": "mu",
-     "value": 0.017,
-     "distribution": {
-      "type": "StandardUniform1",
-      "parameters": {
-       "minimum": 0.013600000000000001,
-       "maximum": 0.0204
-      }
-     }
-    },
-    {
-     "id": "nu",
-     "value": 0.027,
-     "distribution": {
-      "type": "StandardUniform1",
-      "parameters": {
-       "minimum": 0.0216,
-       "maximum": 0.0324
-      }
-     }
-    },
-    {
-     "id": "xi",
-     "value": 0.017,
-     "distribution": {
-      "type": "StandardUniform1",
-      "parameters": {
-       "minimum": 0.013600000000000001,
-       "maximum": 0.0204
-      }
-     }
-    },
-    {
-     "id": "tau",
-     "value": 0.01,
-     "distribution": {
-      "type": "StandardUniform1",
-      "parameters": {
-       "minimum": 0.008,
-       "maximum": 0.012
-      }
-     }
-    },
-    {
-     "id": "sigma",
-     "value": 0.017,
-     "distribution": {
-      "type": "StandardUniform1",
-      "parameters": {
-       "minimum": 0.013600000000000001,
-       "maximum": 0.0204
-      }
-     }
-    }
-   ],
-   "observables": [
-    {
-     "id": "Cases",
-     "name": "Cases",
-     "expression": "Diagnosed + Recognized + Threatened",
-     "expression_mathml": "<apply><plus/><ci>Diagnosed</ci><ci>Recognized</ci><ci>Threatened</ci></apply>"
-    },
-    {
-     "id": "Hospitalizations",
-     "name": "Hospitalizations",
-     "expression": "Recognized + Threatened",
-     "expression_mathml": "<apply><plus/><ci>Recognized</ci><ci>Threatened</ci></apply>"
-    },
-    {
-     "id": "Deaths",
-     "name": "Deaths",
-     "expression": "Extinct",
-     "expression_mathml": "<ci>Extinct</ci>"
-    }
-   ],
-   "time": {
-    "id": "t",
-    "units": {
-     "expression": "day",
-     "expression_mathml": "<ci>day</ci>"
     }
    }
-  }
- },
- "metadata": {
-  "annotations": {
-   "license": "CC0",
-   "authors": [],
-   "references": [
-    "pubmed:32322102"
-   ],
-   "time_scale": null,
-   "time_start": null,
-   "time_end": null,
-   "locations": [],
-   "pathogens": [
-    "ncbitaxon:2697049"
-   ],
-   "diseases": [
-    "doid:0080600"
-   ],
-   "hosts": [
-    "ncbitaxon:9606"
-   ],
-   "model_types": [
-    "mamo:0000028"
-   ]
-  }
- }
-}
\ No newline at end of file
diff --git a/examples/dataset.csv b/examples/dataset.csv
deleted file mode 100644
index d8818ec..0000000
--- a/examples/dataset.csv
+++ /dev/null
@@ -1,92 +0,0 @@
-timestep,S,E,I,R,D
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diff --git a/examples/request-calibrate-no-integration.json b/examples/request-calibrate-no-integration.json
index 6552202..1cb9b4a 100644
--- a/examples/request-calibrate-no-integration.json
+++ b/examples/request-calibrate-no-integration.json
@@ -1,8 +1,8 @@
 {
-  "model": "{\"name\": \"Giordano2020 - SIDARTHE model of COVID-19 spread in Italy\",\"schema\": \"https://raw.githubusercontent.com/DARPA-ASKEM/Model-Representations/petrinet_v0.5/petrinet/petrinet_schema.json\",\"schema_name\": \"petrinet\",\"description\": \"Giordano2020 - SIDARTHE model of COVID-19 spread in Italy\",\"model_version\": \"0.1\",\"properties\": {},\"model\": { \"states\": [  {   \"id\": \"Susceptible\",   \"name\": \"Susceptible\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000514\"    },    \"modifiers\": {}   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Diagnosed\",   \"name\": \"Diagnosed\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000511\"    },    \"modifiers\": {     \"diagnosis\": \"ncit:C15220\"    }   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Infected\",   \"name\": \"Infected\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000511\"    },    \"modifiers\": {}   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Ailing\",   \"name\": \"Ailing\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000511\"    },    \"modifiers\": {     \"disease_severity\": \"ncit:C25269\",     \"diagnosis\": \"ncit:C113725\"    }   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Recognized\",   \"name\": \"Recognized\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000511\"    },    \"modifiers\": {     \"diagnosis\": \"ncit:C15220\"    }   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Healed\",   \"name\": \"Healed\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000592\"    },    \"modifiers\": {}   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Threatened\",   \"name\": \"Threatened\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000511\"    },    \"modifiers\": {     \"disease_severity\": \"ncit:C25467\"    }   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Extinct\",   \"name\": \"Extinct\",   \"grounding\": {    \"identifiers\": {     \"ncit\": \"C28554\"    },    \"modifiers\": {}   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  } ], \"transitions\": [  {   \"id\": \"t1\",   \"input\": [    \"Diagnosed\",    \"Susceptible\"   ],   \"output\": [    \"Diagnosed\",    \"Infected\"   ],   \"properties\": {    \"name\": \"t1\"   }  },  {   \"id\": \"t2\",   \"input\": [    \"Ailing\",    \"Susceptible\"   ],   \"output\": [    \"Ailing\",    \"Infected\"   ],   \"properties\": {    \"name\": \"t2\"   }  },  {   \"id\": \"t3\",   \"input\": [    \"Recognized\",    \"Susceptible\"   ],   \"output\": [    \"Recognized\",    \"Infected\"   ],   \"properties\": {    \"name\": \"t3\"   }  },  {   \"id\": \"t4\",   \"input\": [    \"Infected\",    \"Susceptible\"   ],   \"output\": [    \"Infected\",    \"Infected\"   ],   \"properties\": {    \"name\": \"t4\"   }  },  {   \"id\": \"t5\",   \"input\": [    \"Infected\"   ],   \"output\": [    \"Diagnosed\"   ],   \"properties\": {    \"name\": \"t5\"   }  },  {   \"id\": \"t6\",   \"input\": [    \"Infected\"   ],   \"output\": [    \"Ailing\"   ],   \"properties\": {    \"name\": \"t6\"   }  },  {   \"id\": \"t7\",   \"input\": [    \"Infected\"   ],   \"output\": [    \"Healed\"   ],   \"properties\": {    \"name\": \"t7\"   }  },  {   \"id\": \"t8\",   \"input\": [    \"Diagnosed\"   ],   \"output\": [    \"Recognized\"   ],   \"properties\": {    \"name\": \"t8\"   }  },  {   \"id\": \"t9\",   \"input\": [    \"Diagnosed\"   ],   \"output\": [    \"Healed\"   ],   \"properties\": {    \"name\": \"t9\"   }  },  {   \"id\": \"t10\",   \"input\": [    \"Ailing\"   ],   \"output\": [    \"Recognized\"   ],   \"properties\": {    \"name\": \"t10\"   }  },  {   \"id\": \"t11\",   \"input\": [    \"Ailing\"   ],   \"output\": [    \"Healed\"   ],   \"properties\": {    \"name\": \"t11\"   }  },  {   \"id\": \"t12\",   \"input\": [    \"Ailing\"   ],   \"output\": [    \"Threatened\"   ],   \"properties\": {    \"name\": \"t12\"   }  },  {   \"id\": \"t13\",   \"input\": [    \"Recognized\"   ],   \"output\": [    \"Threatened\"   ],   \"properties\": {    \"name\": \"t13\"   }  },  {   \"id\": \"t14\",   \"input\": [     \"Recognized\"    ],    \"output\": [     \"Healed\"    ],    \"properties\": {     \"name\": \"t14\"    }   },   {    \"id\": \"t15\",    \"input\": [     \"Threatened\"    ],    \"output\": [     \"Extinct\"    ],    \"properties\": {     \"name\": \"t15\"    }   },   {    \"id\": \"t16\",    \"input\": [     \"Threatened\"    ],    \"output\": [     \"Healed\"    ],    \"properties\": {     \"name\": \"t16\"    }   }  ] }, \"semantics\": {  \"ode\": {   \"rates\": [    {     \"target\": \"t1\",     \"expression\": \"Diagnosed*Susceptible*beta\",     \"expression_mathml\": \"<apply><times/><ci>Diagnosed</ci><ci>Susceptible</ci><ci>beta</ci></apply>\"    },    {     \"target\": \"t2\",     \"expression\": \"Ailing*Susceptible*gamma\",     \"expression_mathml\": \"<apply><times/><ci>Ailing</ci><ci>Susceptible</ci><ci>gamma</ci></apply>\"    },    {     \"target\": \"t3\",     \"expression\": \"Recognized*Susceptible*delta\",     \"expression_mathml\": \"<apply><times/><ci>Recognized</ci><ci>Susceptible</ci><ci>delta</ci></apply>\"    },    {     \"target\": \"t4\",     \"expression\": \"Infected*Susceptible*alpha\",     \"expression_mathml\": \"<apply><times/><ci>Infected</ci><ci>Susceptible</ci><ci>alpha</ci></apply>\"    },    {     \"target\": \"t5\",     \"expression\": \"Infected*epsilon\",     \"expression_mathml\": \"<apply><times/><ci>Infected</ci><ci>epsilon</ci></apply>\"    },    {     \"target\": \"t6\",     \"expression\": \"Infected*zeta\",     \"expression_mathml\": \"<apply><times/><ci>Infected</ci><ci>zeta</ci></apply>\"    },    {     \"target\": \"t7\",     \"expression\": \"Infected*lambda\",     \"expression_mathml\": \"<apply><times/><ci>Infected</ci><ci>lambda</ci></apply>\"    },    {     \"target\": \"t8\",     \"expression\": \"Diagnosed*eta\",     \"expression_mathml\": \"<apply><times/><ci>Diagnosed</ci><ci>eta</ci></apply>\"    },    {     \"target\": \"t9\",     \"expression\": \"Diagnosed*rho\",     \"expression_mathml\": \"<apply><times/><ci>Diagnosed</ci><ci>rho</ci></apply>\"    },    {     \"target\": \"t10\",     \"expression\": \"Ailing*theta\",     \"expression_mathml\": \"<apply><times/><ci>Ailing</ci><ci>theta</ci></apply>\"    },    {     \"target\": \"t11\",     \"expression\": \"Ailing*kappa\",     \"expression_mathml\": \"<apply><times/><ci>Ailing</ci><ci>kappa</ci></apply>\"    },    {     \"target\": \"t12\",     \"expression\": \"Ailing*mu\",     \"expression_mathml\": \"<apply><times/><ci>Ailing</ci><ci>mu</ci></apply>\"    },    {     \"target\": \"t13\",     \"expression\": \"Recognized*nu\",     \"expression_mathml\": \"<apply><times/><ci>Recognized</ci><ci>nu</ci></apply>\"    },    {     \"target\": \"t14\",     \"expression\": \"Recognized*xi\",     \"expression_mathml\": \"<apply><times/><ci>Recognized</ci><ci>xi</ci></apply>\"    },    {     \"target\": \"t15\",     \"expression\": \"Threatened*tau\",     \"expression_mathml\": \"<apply><times/><ci>Threatened</ci><ci>tau</ci></apply>\"    },    {     \"target\": \"t16\",     \"expression\": \"Threatened*sigma\",     \"expression_mathml\": \"<apply><times/><ci>Threatened</ci><ci>sigma</ci></apply>\"    }   ],   \"initials\": [    {     \"target\": \"Susceptible\",     \"expression\": \"0.999996300000000\",     \"expression_mathml\": \"<cn>0.99999629999999995</cn>\"    },    {     \"target\": \"Diagnosed\",     \"expression\": \"3.33333333000000e-7\",     \"expression_mathml\": \"<cn>3.33333333e-7</cn>\"    },    {     \"target\": \"Infected\",     \"expression\": \"3.33333333000000e-6\",     \"expression_mathml\": \"<cn>3.3333333299999999e-6</cn>\"    },    {     \"target\": \"Ailing\",     \"expression\": \"1.66666666000000e-8\",     \"expression_mathml\": \"<cn>1.6666666599999999e-8</cn>\"    },    {     \"target\": \"Recognized\",     \"expression\": \"3.33333333000000e-8\",     \"expression_mathml\": \"<cn>3.33333333e-8</cn>\"    },    {     \"target\": \"Healed\",     \"expression\": \"0.0\",     \"expression_mathml\": \"<cn>0.0</cn>\"    },    {     \"target\": \"Threatened\",     \"expression\": \"0.0\",     \"expression_mathml\": \"<cn>0.0</cn>\"    },    {     \"target\": \"Extinct\",     \"expression\": \"0.0\",     \"expression_mathml\": \"<cn>0.0</cn>\"    }   ],   \"parameters\": [    {     \"id\": \"beta\",     \"value\": 0.011,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.008799999999999999,       \"maximum\": 0.0132      }     }    },    {     \"id\": \"gamma\",     \"value\": 0.456,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.3648,       \"maximum\": 0.5472      }     }    },    {     \"id\": \"delta\",     \"value\": 0.011,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.008799999999999999,       \"maximum\": 0.0132      }     }    },    {     \"id\": \"alpha\",     \"value\": 0.57,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.45599999999999996,       \"maximum\": 0.6839999999999999      }     }    },    {     \"id\": \"epsilon\",     \"value\": 0.171,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.1368,       \"maximum\": 0.20520000000000002      }     }    },    {     \"id\": \"zeta\",     \"value\": 0.125,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.1,       \"maximum\": 0.15      }     }    },    {     \"id\": \"lambda\",     \"value\": 0.034,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.027200000000000002,       \"maximum\": 0.0408      }     }    },    {     \"id\": \"eta\",     \"value\": 0.125,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.1,       \"maximum\": 0.15      }     }    },    {     \"id\": \"rho\",     \"value\": 0.034,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.027200000000000002,       \"maximum\": 0.0408      }     }    },    {     \"id\": \"theta\",     \"value\": 0.371,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.2968,       \"maximum\": 0.4452      }     }    },    {     \"id\": \"kappa\",     \"value\": 0.017,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.013600000000000001,       \"maximum\": 0.0204      }     }    },    {     \"id\": \"mu\",     \"value\": 0.017,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.013600000000000001,       \"maximum\": 0.0204      }     }    },    {     \"id\": \"nu\",     \"value\": 0.027,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.0216,       \"maximum\": 0.0324      }     }    },    {     \"id\": \"xi\",     \"value\": 0.017,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.013600000000000001,       \"maximum\": 0.0204      }     }    },    {     \"id\": \"tau\",     \"value\": 0.01,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.008,       \"maximum\": 0.012      }     }    },    {     \"id\": \"sigma\",     \"value\": 0.017,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.013600000000000001,       \"maximum\": 0.0204      }     }    }   ],   \"observables\": [    {     \"id\": \"Cases\",     \"name\": \"Cases\",     \"expression\": \"Diagnosed + Recognized + Threatened\",     \"expression_mathml\": \"<apply><plus/><ci>Diagnosed</ci><ci>Recognized</ci><ci>Threatened</ci></apply>\"    },    {     \"id\": \"Hospitalizations\",     \"name\": \"Hospitalizations\",     \"expression\": \"Recognized + Threatened\",     \"expression_mathml\": \"<apply><plus/><ci>Recognized</ci><ci>Threatened</ci></apply>\"    },    {     \"id\": \"Deaths\",     \"name\": \"Deaths\",     \"expression\": \"Extinct\",     \"expression_mathml\": \"<ci>Extinct</ci>\"    }   ],   \"time\": {    \"id\": \"t\",    \"units\": {     \"expression\": \"day\",     \"expression_mathml\": \"<ci>day</ci>\"    }   }  } }, \"metadata\": {  \"annotations\": {   \"license\": \"CC0\",   \"authors\": [],   \"references\": [    \"pubmed:32322102\"   ],   \"time_scale\": null,   \"time_start\": null,   \"time_end\": null,   \"locations\": [],   \"pathogens\": [    \"ncbitaxon:2697049\"   ],   \"diseases\": [    \"doid:0080600\"   ],   \"hosts\": [    \"ncbitaxon:9606\"   ],   \"model_types\": [    \"mamo:0000028\"   ]  } }}",
-  "dataset": {
-    "id": "2ea2d39f-866f-46f6-beec-972ed2136ed5",
-    "filename": "dataset.csv"
-  },
-  "timespan": {"start": 101, "end": 190}
-}
+    "model": "{\"name\": \"Giordano2020 - SIDARTHE model of COVID-19 spread in Italy\",\"schema\": \"https://raw.githubusercontent.com/DARPA-ASKEM/Model-Representations/petrinet_v0.5/petrinet/petrinet_schema.json\",\"schema_name\": \"petrinet\",\"description\": \"Giordano2020 - SIDARTHE model of COVID-19 spread in Italy\",\"model_version\": \"0.1\",\"properties\": {},\"model\": { \"states\": [  {   \"id\": \"Susceptible\",   \"name\": \"Susceptible\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000514\"    },    \"modifiers\": {}   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Diagnosed\",   \"name\": \"Diagnosed\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000511\"    },    \"modifiers\": {     \"diagnosis\": \"ncit:C15220\"    }   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Infected\",   \"name\": \"Infected\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000511\"    },    \"modifiers\": {}   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Ailing\",   \"name\": \"Ailing\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000511\"    },    \"modifiers\": {     \"disease_severity\": \"ncit:C25269\",     \"diagnosis\": \"ncit:C113725\"    }   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Recognized\",   \"name\": \"Recognized\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000511\"    },    \"modifiers\": {     \"diagnosis\": \"ncit:C15220\"    }   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Healed\",   \"name\": \"Healed\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000592\"    },    \"modifiers\": {}   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Threatened\",   \"name\": \"Threatened\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000511\"    },    \"modifiers\": {     \"disease_severity\": \"ncit:C25467\"    }   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Extinct\",   \"name\": \"Extinct\",   \"grounding\": {    \"identifiers\": {     \"ncit\": \"C28554\"    },    \"modifiers\": {}   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  } ], \"transitions\": [  {   \"id\": \"t1\",   \"input\": [    \"Diagnosed\",    \"Susceptible\"   ],   \"output\": [    \"Diagnosed\",    \"Infected\"   ],   \"properties\": {    \"name\": \"t1\"   }  },  {   \"id\": \"t2\",   \"input\": [    \"Ailing\",    \"Susceptible\"   ],   \"output\": [    \"Ailing\",    \"Infected\"   ],   \"properties\": {    \"name\": \"t2\"   }  },  {   \"id\": \"t3\",   \"input\": [    \"Recognized\",    \"Susceptible\"   ],   \"output\": [    \"Recognized\",    \"Infected\"   ],   \"properties\": {    \"name\": \"t3\"   }  },  {   \"id\": \"t4\",   \"input\": [    \"Infected\",    \"Susceptible\"   ],   \"output\": [    \"Infected\",    \"Infected\"   ],   \"properties\": {    \"name\": \"t4\"   }  },  {   \"id\": \"t5\",   \"input\": [    \"Infected\"   ],   \"output\": [    \"Diagnosed\"   ],   \"properties\": {    \"name\": \"t5\"   }  },  {   \"id\": \"t6\",   \"input\": [    \"Infected\"   ],   \"output\": [    \"Ailing\"   ],   \"properties\": {    \"name\": \"t6\"   }  },  {   \"id\": \"t7\",   \"input\": [    \"Infected\"   ],   \"output\": [    \"Healed\"   ],   \"properties\": {    \"name\": \"t7\"   }  },  {   \"id\": \"t8\",   \"input\": [    \"Diagnosed\"   ],   \"output\": [    \"Recognized\"   ],   \"properties\": {    \"name\": \"t8\"   }  },  {   \"id\": \"t9\",   \"input\": [    \"Diagnosed\"   ],   \"output\": [    \"Healed\"   ],   \"properties\": {    \"name\": \"t9\"   }  },  {   \"id\": \"t10\",   \"input\": [    \"Ailing\"   ],   \"output\": [    \"Recognized\"   ],   \"properties\": {    \"name\": \"t10\"   }  },  {   \"id\": \"t11\",   \"input\": [    \"Ailing\"   ],   \"output\": [    \"Healed\"   ],   \"properties\": {    \"name\": \"t11\"   }  },  {   \"id\": \"t12\",   \"input\": [    \"Ailing\"   ],   \"output\": [    \"Threatened\"   ],   \"properties\": {    \"name\": \"t12\"   }  },  {   \"id\": \"t13\",   \"input\": [    \"Recognized\"   ],   \"output\": [    \"Threatened\"   ],   \"properties\": {    \"name\": \"t13\"   }  },  {   \"id\": \"t14\",   \"input\": [     \"Recognized\"    ],    \"output\": [     \"Healed\"    ],    \"properties\": {     \"name\": \"t14\"    }   },   {    \"id\": \"t15\",    \"input\": [     \"Threatened\"    ],    \"output\": [     \"Extinct\"    ],    \"properties\": {     \"name\": \"t15\"    }   },   {    \"id\": \"t16\",    \"input\": [     \"Threatened\"    ],    \"output\": [     \"Healed\"    ],    \"properties\": {     \"name\": \"t16\"    }   }  ] }, \"semantics\": {  \"ode\": {   \"rates\": [    {     \"target\": \"t1\",     \"expression\": \"Diagnosed*Susceptible*beta\",     \"expression_mathml\": \"<apply><times/><ci>Diagnosed</ci><ci>Susceptible</ci><ci>beta</ci></apply>\"    },    {     \"target\": \"t2\",     \"expression\": \"Ailing*Susceptible*gamma\",     \"expression_mathml\": \"<apply><times/><ci>Ailing</ci><ci>Susceptible</ci><ci>gamma</ci></apply>\"    },    {     \"target\": \"t3\",     \"expression\": \"Recognized*Susceptible*delta\",     \"expression_mathml\": \"<apply><times/><ci>Recognized</ci><ci>Susceptible</ci><ci>delta</ci></apply>\"    },    {     \"target\": \"t4\",     \"expression\": \"Infected*Susceptible*alpha\",     \"expression_mathml\": \"<apply><times/><ci>Infected</ci><ci>Susceptible</ci><ci>alpha</ci></apply>\"    },    {     \"target\": \"t5\",     \"expression\": \"Infected*epsilon\",     \"expression_mathml\": \"<apply><times/><ci>Infected</ci><ci>epsilon</ci></apply>\"    },    {     \"target\": \"t6\",     \"expression\": \"Infected*zeta\",     \"expression_mathml\": \"<apply><times/><ci>Infected</ci><ci>zeta</ci></apply>\"    },    {     \"target\": \"t7\",     \"expression\": \"Infected*lambda\",     \"expression_mathml\": \"<apply><times/><ci>Infected</ci><ci>lambda</ci></apply>\"    },    {     \"target\": \"t8\",     \"expression\": \"Diagnosed*eta\",     \"expression_mathml\": \"<apply><times/><ci>Diagnosed</ci><ci>eta</ci></apply>\"    },    {     \"target\": \"t9\",     \"expression\": \"Diagnosed*rho\",     \"expression_mathml\": \"<apply><times/><ci>Diagnosed</ci><ci>rho</ci></apply>\"    },    {     \"target\": \"t10\",     \"expression\": \"Ailing*theta\",     \"expression_mathml\": \"<apply><times/><ci>Ailing</ci><ci>theta</ci></apply>\"    },    {     \"target\": \"t11\",     \"expression\": \"Ailing*kappa\",     \"expression_mathml\": \"<apply><times/><ci>Ailing</ci><ci>kappa</ci></apply>\"    },    {     \"target\": \"t12\",     \"expression\": \"Ailing*mu\",     \"expression_mathml\": \"<apply><times/><ci>Ailing</ci><ci>mu</ci></apply>\"    },    {     \"target\": \"t13\",     \"expression\": \"Recognized*nu\",     \"expression_mathml\": \"<apply><times/><ci>Recognized</ci><ci>nu</ci></apply>\"    },    {     \"target\": \"t14\",     \"expression\": \"Recognized*xi\",     \"expression_mathml\": \"<apply><times/><ci>Recognized</ci><ci>xi</ci></apply>\"    },    {     \"target\": \"t15\",     \"expression\": \"Threatened*tau\",     \"expression_mathml\": \"<apply><times/><ci>Threatened</ci><ci>tau</ci></apply>\"    },    {     \"target\": \"t16\",     \"expression\": \"Threatened*sigma\",     \"expression_mathml\": \"<apply><times/><ci>Threatened</ci><ci>sigma</ci></apply>\"    }   ],   \"initials\": [    {     \"target\": \"Susceptible\",     \"expression\": \"0.999996300000000\",     \"expression_mathml\": \"<cn>0.99999629999999995</cn>\"    },    {     \"target\": \"Diagnosed\",     \"expression\": \"3.33333333000000e-7\",     \"expression_mathml\": \"<cn>3.33333333e-7</cn>\"    },    {     \"target\": \"Infected\",     \"expression\": \"3.33333333000000e-6\",     \"expression_mathml\": \"<cn>3.3333333299999999e-6</cn>\"    },    {     \"target\": \"Ailing\",     \"expression\": \"1.66666666000000e-8\",     \"expression_mathml\": \"<cn>1.6666666599999999e-8</cn>\"    },    {     \"target\": \"Recognized\",     \"expression\": \"3.33333333000000e-8\",     \"expression_mathml\": \"<cn>3.33333333e-8</cn>\"    },    {     \"target\": \"Healed\",     \"expression\": \"0.0\",     \"expression_mathml\": \"<cn>0.0</cn>\"    },    {     \"target\": \"Threatened\",     \"expression\": \"0.0\",     \"expression_mathml\": \"<cn>0.0</cn>\"    },    {     \"target\": \"Extinct\",     \"expression\": \"0.0\",     \"expression_mathml\": \"<cn>0.0</cn>\"    }   ],   \"parameters\": [    {     \"id\": \"beta\",     \"value\": 0.011,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.008799999999999999,       \"maximum\": 0.0132      }     }    },    {     \"id\": \"gamma\",     \"value\": 0.456,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.3648,       \"maximum\": 0.5472      }     }    },    {     \"id\": \"delta\",     \"value\": 0.011,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.008799999999999999,       \"maximum\": 0.0132      }     }    },    {     \"id\": \"alpha\",     \"value\": 0.57,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.45599999999999996,       \"maximum\": 0.6839999999999999      }     }    },    {     \"id\": \"epsilon\",     \"value\": 0.171,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.1368,       \"maximum\": 0.20520000000000002      }     }    },    {     \"id\": \"zeta\",     \"value\": 0.125,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.1,       \"maximum\": 0.15      }     }    },    {     \"id\": \"lambda\",     \"value\": 0.034,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.027200000000000002,       \"maximum\": 0.0408      }     }    },    {     \"id\": \"eta\",     \"value\": 0.125,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.1,       \"maximum\": 0.15      }     }    },    {     \"id\": \"rho\",     \"value\": 0.034,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.027200000000000002,       \"maximum\": 0.0408      }     }    },    {     \"id\": \"theta\",     \"value\": 0.371,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.2968,       \"maximum\": 0.4452      }     }    },    {     \"id\": \"kappa\",     \"value\": 0.017,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.013600000000000001,       \"maximum\": 0.0204      }     }    },    {     \"id\": \"mu\",     \"value\": 0.017,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.013600000000000001,       \"maximum\": 0.0204      }     }    },    {     \"id\": \"nu\",     \"value\": 0.027,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.0216,       \"maximum\": 0.0324      }     }    },    {     \"id\": \"xi\",     \"value\": 0.017,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.013600000000000001,       \"maximum\": 0.0204      }     }    },    {     \"id\": \"tau\",     \"value\": 0.01,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.008,       \"maximum\": 0.012      }     }    },    {     \"id\": \"sigma\",     \"value\": 0.017,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.013600000000000001,       \"maximum\": 0.0204      }     }    }   ],   \"observables\": [    {     \"id\": \"Cases\",     \"name\": \"Cases\",     \"expression\": \"Diagnosed + Recognized + Threatened\",     \"expression_mathml\": \"<apply><plus/><ci>Diagnosed</ci><ci>Recognized</ci><ci>Threatened</ci></apply>\"    },    {     \"id\": \"Hospitalizations\",     \"name\": \"Hospitalizations\",     \"expression\": \"Recognized + Threatened\",     \"expression_mathml\": \"<apply><plus/><ci>Recognized</ci><ci>Threatened</ci></apply>\"    },    {     \"id\": \"Deaths\",     \"name\": \"Deaths\",     \"expression\": \"Extinct\",     \"expression_mathml\": \"<ci>Extinct</ci>\"    }   ],   \"time\": {    \"id\": \"t\",    \"units\": {     \"expression\": \"day\",     \"expression_mathml\": \"<ci>day</ci>\"    }   }  } }, \"metadata\": {  \"annotations\": {   \"license\": \"CC0\",   \"authors\": [],   \"references\": [    \"pubmed:32322102\"   ],   \"time_scale\": null,   \"time_start\": null,   \"time_end\": null,   \"locations\": [],   \"pathogens\": [    \"ncbitaxon:2697049\"   ],   \"diseases\": [    \"doid:0080600\"   ],   \"hosts\": [    \"ncbitaxon:9606\"   ],   \"model_types\": [    \"mamo:0000028\"   ]  } }}",
+    "dataset": {
+      "id": "2ea2d39f-866f-46f6-beec-972ed2136ed5",
+      "filename": "dataset.csv"
+    },
+    "timespan": {"start": 101, "end": 190}
+  }
diff --git a/examples/request-simulate-integrated.json b/examples/request-simulate-integrated.json
index 1a696c6..3da6c9e 100644
--- a/examples/request-simulate-integrated.json
+++ b/examples/request-simulate-integrated.json
@@ -1,19 +1,4 @@
 {
   "model_config_id": "f20ea672-bfa4-422b-884f-0a4c09356fd0",
-  "timespan": {"start": 0, "end": 90},
-  "extra": {
-    "initials": {
-      "S": 0.49457800495224524,
-      "E": 0.26745259325403603,
-      "I": 0.4497387877393193,
-      "R": 0.32807705995998604,
-      "D": 0.8545934885162726
-    },
-    "params": {
-      "exp":   0.16207166221196045,
-      "conv":  0.7009195813964052,
-      "rec":   0.7040317196117394,
-      "death": 0.15807853921067516
-     }
-  }
+  "timespan": {"start": 0, "end": 90}
 }
diff --git a/examples/request-simulate-no-integration.json b/examples/request-simulate-no-integration.json
index 7b60e7e..ea659df 100644
--- a/examples/request-simulate-no-integration.json
+++ b/examples/request-simulate-no-integration.json
@@ -1,4 +1,4 @@
 {
-  "model": "{\"name\": \"Giordano2020 - SIDARTHE model of COVID-19 spread in Italy\",\"schema\": \"https://raw.githubusercontent.com/DARPA-ASKEM/Model-Representations/petrinet_v0.5/petrinet/petrinet_schema.json\",\"schema_name\": \"petrinet\",\"description\": \"Giordano2020 - SIDARTHE model of COVID-19 spread in Italy\",\"model_version\": \"0.1\",\"properties\": {},\"model\": { \"states\": [  {   \"id\": \"Susceptible\",   \"name\": \"Susceptible\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000514\"    },    \"modifiers\": {}   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Diagnosed\",   \"name\": \"Diagnosed\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000511\"    },    \"modifiers\": {     \"diagnosis\": \"ncit:C15220\"    }   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Infected\",   \"name\": \"Infected\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000511\"    },    \"modifiers\": {}   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Ailing\",   \"name\": \"Ailing\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000511\"    },    \"modifiers\": {     \"disease_severity\": \"ncit:C25269\",     \"diagnosis\": \"ncit:C113725\"    }   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Recognized\",   \"name\": \"Recognized\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000511\"    },    \"modifiers\": {     \"diagnosis\": \"ncit:C15220\"    }   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Healed\",   \"name\": \"Healed\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000592\"    },    \"modifiers\": {}   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Threatened\",   \"name\": \"Threatened\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000511\"    },    \"modifiers\": {     \"disease_severity\": \"ncit:C25467\"    }   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Extinct\",   \"name\": \"Extinct\",   \"grounding\": {    \"identifiers\": {     \"ncit\": \"C28554\"    },    \"modifiers\": {}   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  } ], \"transitions\": [  {   \"id\": \"t1\",   \"input\": [    \"Diagnosed\",    \"Susceptible\"   ],   \"output\": [    \"Diagnosed\",    \"Infected\"   ],   \"properties\": {    \"name\": \"t1\"   }  },  {   \"id\": \"t2\",   \"input\": [    \"Ailing\",    \"Susceptible\"   ],   \"output\": [    \"Ailing\",    \"Infected\"   ],   \"properties\": {    \"name\": \"t2\"   }  },  {   \"id\": \"t3\",   \"input\": [    \"Recognized\",    \"Susceptible\"   ],   \"output\": [    \"Recognized\",    \"Infected\"   ],   \"properties\": {    \"name\": \"t3\"   }  },  {   \"id\": \"t4\",   \"input\": [    \"Infected\",    \"Susceptible\"   ],   \"output\": [    \"Infected\",    \"Infected\"   ],   \"properties\": {    \"name\": \"t4\"   }  },  {   \"id\": \"t5\",   \"input\": [    \"Infected\"   ],   \"output\": [    \"Diagnosed\"   ],   \"properties\": {    \"name\": \"t5\"   }  },  {   \"id\": \"t6\",   \"input\": [    \"Infected\"   ],   \"output\": [    \"Ailing\"   ],   \"properties\": {    \"name\": \"t6\"   }  },  {   \"id\": \"t7\",   \"input\": [    \"Infected\"   ],   \"output\": [    \"Healed\"   ],   \"properties\": {    \"name\": \"t7\"   }  },  {   \"id\": \"t8\",   \"input\": [    \"Diagnosed\"   ],   \"output\": [    \"Recognized\"   ],   \"properties\": {    \"name\": \"t8\"   }  },  {   \"id\": \"t9\",   \"input\": [    \"Diagnosed\"   ],   \"output\": [    \"Healed\"   ],   \"properties\": {    \"name\": \"t9\"   }  },  {   \"id\": \"t10\",   \"input\": [    \"Ailing\"   ],   \"output\": [    \"Recognized\"   ],   \"properties\": {    \"name\": \"t10\"   }  },  {   \"id\": \"t11\",   \"input\": [    \"Ailing\"   ],   \"output\": [    \"Healed\"   ],   \"properties\": {    \"name\": \"t11\"   }  },  {   \"id\": \"t12\",   \"input\": [    \"Ailing\"   ],   \"output\": [    \"Threatened\"   ],   \"properties\": {    \"name\": \"t12\"   }  },  {   \"id\": \"t13\",   \"input\": [    \"Recognized\"   ],   \"output\": [    \"Threatened\"   ],   \"properties\": {    \"name\": \"t13\"   }  },  {   \"id\": \"t14\",   \"input\": [     \"Recognized\"    ],    \"output\": [     \"Healed\"    ],    \"properties\": {     \"name\": \"t14\"    }   },   {    \"id\": \"t15\",    \"input\": [     \"Threatened\"    ],    \"output\": [     \"Extinct\"    ],    \"properties\": {     \"name\": \"t15\"    }   },   {    \"id\": \"t16\",    \"input\": [     \"Threatened\"    ],    \"output\": [     \"Healed\"    ],    \"properties\": {     \"name\": \"t16\"    }   }  ] }, \"semantics\": {  \"ode\": {   \"rates\": [    {     \"target\": \"t1\",     \"expression\": \"Diagnosed*Susceptible*beta\",     \"expression_mathml\": \"<apply><times/><ci>Diagnosed</ci><ci>Susceptible</ci><ci>beta</ci></apply>\"    },    {     \"target\": \"t2\",     \"expression\": \"Ailing*Susceptible*gamma\",     \"expression_mathml\": \"<apply><times/><ci>Ailing</ci><ci>Susceptible</ci><ci>gamma</ci></apply>\"    },    {     \"target\": \"t3\",     \"expression\": \"Recognized*Susceptible*delta\",     \"expression_mathml\": \"<apply><times/><ci>Recognized</ci><ci>Susceptible</ci><ci>delta</ci></apply>\"    },    {     \"target\": \"t4\",     \"expression\": \"Infected*Susceptible*alpha\",     \"expression_mathml\": \"<apply><times/><ci>Infected</ci><ci>Susceptible</ci><ci>alpha</ci></apply>\"    },    {     \"target\": \"t5\",     \"expression\": \"Infected*epsilon\",     \"expression_mathml\": \"<apply><times/><ci>Infected</ci><ci>epsilon</ci></apply>\"    },    {     \"target\": \"t6\",     \"expression\": \"Infected*zeta\",     \"expression_mathml\": \"<apply><times/><ci>Infected</ci><ci>zeta</ci></apply>\"    },    {     \"target\": \"t7\",     \"expression\": \"Infected*lambda\",     \"expression_mathml\": \"<apply><times/><ci>Infected</ci><ci>lambda</ci></apply>\"    },    {     \"target\": \"t8\",     \"expression\": \"Diagnosed*eta\",     \"expression_mathml\": \"<apply><times/><ci>Diagnosed</ci><ci>eta</ci></apply>\"    },    {     \"target\": \"t9\",     \"expression\": \"Diagnosed*rho\",     \"expression_mathml\": \"<apply><times/><ci>Diagnosed</ci><ci>rho</ci></apply>\"    },    {     \"target\": \"t10\",     \"expression\": \"Ailing*theta\",     \"expression_mathml\": \"<apply><times/><ci>Ailing</ci><ci>theta</ci></apply>\"    },    {     \"target\": \"t11\",     \"expression\": \"Ailing*kappa\",     \"expression_mathml\": \"<apply><times/><ci>Ailing</ci><ci>kappa</ci></apply>\"    },    {     \"target\": \"t12\",     \"expression\": \"Ailing*mu\",     \"expression_mathml\": \"<apply><times/><ci>Ailing</ci><ci>mu</ci></apply>\"    },    {     \"target\": \"t13\",     \"expression\": \"Recognized*nu\",     \"expression_mathml\": \"<apply><times/><ci>Recognized</ci><ci>nu</ci></apply>\"    },    {     \"target\": \"t14\",     \"expression\": \"Recognized*xi\",     \"expression_mathml\": \"<apply><times/><ci>Recognized</ci><ci>xi</ci></apply>\"    },    {     \"target\": \"t15\",     \"expression\": \"Threatened*tau\",     \"expression_mathml\": \"<apply><times/><ci>Threatened</ci><ci>tau</ci></apply>\"    },    {     \"target\": \"t16\",     \"expression\": \"Threatened*sigma\",     \"expression_mathml\": \"<apply><times/><ci>Threatened</ci><ci>sigma</ci></apply>\"    }   ],   \"initials\": [    {     \"target\": \"Susceptible\",     \"expression\": \"0.999996300000000\",     \"expression_mathml\": \"<cn>0.99999629999999995</cn>\"    },    {     \"target\": \"Diagnosed\",     \"expression\": \"3.33333333000000e-7\",     \"expression_mathml\": \"<cn>3.33333333e-7</cn>\"    },    {     \"target\": \"Infected\",     \"expression\": \"3.33333333000000e-6\",     \"expression_mathml\": \"<cn>3.3333333299999999e-6</cn>\"    },    {     \"target\": \"Ailing\",     \"expression\": \"1.66666666000000e-8\",     \"expression_mathml\": \"<cn>1.6666666599999999e-8</cn>\"    },    {     \"target\": \"Recognized\",     \"expression\": \"3.33333333000000e-8\",     \"expression_mathml\": \"<cn>3.33333333e-8</cn>\"    },    {     \"target\": \"Healed\",     \"expression\": \"0.0\",     \"expression_mathml\": \"<cn>0.0</cn>\"    },    {     \"target\": \"Threatened\",     \"expression\": \"0.0\",     \"expression_mathml\": \"<cn>0.0</cn>\"    },    {     \"target\": \"Extinct\",     \"expression\": \"0.0\",     \"expression_mathml\": \"<cn>0.0</cn>\"    }   ],   \"parameters\": [    {     \"id\": \"beta\",     \"value\": 0.011,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.008799999999999999,       \"maximum\": 0.0132      }     }    },    {     \"id\": \"gamma\",     \"value\": 0.456,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.3648,       \"maximum\": 0.5472      }     }    },    {     \"id\": \"delta\",     \"value\": 0.011,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.008799999999999999,       \"maximum\": 0.0132      }     }    },    {     \"id\": \"alpha\",     \"value\": 0.57,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.45599999999999996,       \"maximum\": 0.6839999999999999      }     }    },    {     \"id\": \"epsilon\",     \"value\": 0.171,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.1368,       \"maximum\": 0.20520000000000002      }     }    },    {     \"id\": \"zeta\",     \"value\": 0.125,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.1,       \"maximum\": 0.15      }     }    },    {     \"id\": \"lambda\",     \"value\": 0.034,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.027200000000000002,       \"maximum\": 0.0408      }     }    },    {     \"id\": \"eta\",     \"value\": 0.125,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.1,       \"maximum\": 0.15      }     }    },    {     \"id\": \"rho\",     \"value\": 0.034,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.027200000000000002,       \"maximum\": 0.0408      }     }    },    {     \"id\": \"theta\",     \"value\": 0.371,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.2968,       \"maximum\": 0.4452      }     }    },    {     \"id\": \"kappa\",     \"value\": 0.017,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.013600000000000001,       \"maximum\": 0.0204      }     }    },    {     \"id\": \"mu\",     \"value\": 0.017,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.013600000000000001,       \"maximum\": 0.0204      }     }    },    {     \"id\": \"nu\",     \"value\": 0.027,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.0216,       \"maximum\": 0.0324      }     }    },    {     \"id\": \"xi\",     \"value\": 0.017,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.013600000000000001,       \"maximum\": 0.0204      }     }    },    {     \"id\": \"tau\",     \"value\": 0.01,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.008,       \"maximum\": 0.012      }     }    },    {     \"id\": \"sigma\",     \"value\": 0.017,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.013600000000000001,       \"maximum\": 0.0204      }     }    }   ],   \"observables\": [    {     \"id\": \"Cases\",     \"name\": \"Cases\",     \"expression\": \"Diagnosed + Recognized + Threatened\",     \"expression_mathml\": \"<apply><plus/><ci>Diagnosed</ci><ci>Recognized</ci><ci>Threatened</ci></apply>\"    },    {     \"id\": \"Hospitalizations\",     \"name\": \"Hospitalizations\",     \"expression\": \"Recognized + Threatened\",     \"expression_mathml\": \"<apply><plus/><ci>Recognized</ci><ci>Threatened</ci></apply>\"    },    {     \"id\": \"Deaths\",     \"name\": \"Deaths\",     \"expression\": \"Extinct\",     \"expression_mathml\": \"<ci>Extinct</ci>\"    }   ],   \"time\": {    \"id\": \"t\",    \"units\": {     \"expression\": \"day\",     \"expression_mathml\": \"<ci>day</ci>\"    }   }  } }, \"metadata\": {  \"annotations\": {   \"license\": \"CC0\",   \"authors\": [],   \"references\": [    \"pubmed:32322102\"   ],   \"time_scale\": null,   \"time_start\": null,   \"time_end\": null,   \"locations\": [],   \"pathogens\": [    \"ncbitaxon:2697049\"   ],   \"diseases\": [    \"doid:0080600\"   ],   \"hosts\": [    \"ncbitaxon:9606\"   ],   \"model_types\": [    \"mamo:0000028\"   ]  } }}",
-  "timespan": {"start": 0, "end": 90}
-}
+    "model": "{\"name\": \"Giordano2020 - SIDARTHE model of COVID-19 spread in Italy\",\"schema\": \"https://raw.githubusercontent.com/DARPA-ASKEM/Model-Representations/petrinet_v0.5/petrinet/petrinet_schema.json\",\"schema_name\": \"petrinet\",\"description\": \"Giordano2020 - SIDARTHE model of COVID-19 spread in Italy\",\"model_version\": \"0.1\",\"properties\": {},\"model\": { \"states\": [  {   \"id\": \"Susceptible\",   \"name\": \"Susceptible\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000514\"    },    \"modifiers\": {}   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Diagnosed\",   \"name\": \"Diagnosed\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000511\"    },    \"modifiers\": {     \"diagnosis\": \"ncit:C15220\"    }   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Infected\",   \"name\": \"Infected\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000511\"    },    \"modifiers\": {}   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Ailing\",   \"name\": \"Ailing\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000511\"    },    \"modifiers\": {     \"disease_severity\": \"ncit:C25269\",     \"diagnosis\": \"ncit:C113725\"    }   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Recognized\",   \"name\": \"Recognized\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000511\"    },    \"modifiers\": {     \"diagnosis\": \"ncit:C15220\"    }   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Healed\",   \"name\": \"Healed\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000592\"    },    \"modifiers\": {}   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Threatened\",   \"name\": \"Threatened\",   \"grounding\": {    \"identifiers\": {     \"ido\": \"0000511\"    },    \"modifiers\": {     \"disease_severity\": \"ncit:C25467\"    }   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  },  {   \"id\": \"Extinct\",   \"name\": \"Extinct\",   \"grounding\": {    \"identifiers\": {     \"ncit\": \"C28554\"    },    \"modifiers\": {}   },   \"units\": {    \"expression\": \"1\",    \"expression_mathml\": \"<cn>1</cn>\"   }  } ], \"transitions\": [  {   \"id\": \"t1\",   \"input\": [    \"Diagnosed\",    \"Susceptible\"   ],   \"output\": [    \"Diagnosed\",    \"Infected\"   ],   \"properties\": {    \"name\": \"t1\"   }  },  {   \"id\": \"t2\",   \"input\": [    \"Ailing\",    \"Susceptible\"   ],   \"output\": [    \"Ailing\",    \"Infected\"   ],   \"properties\": {    \"name\": \"t2\"   }  },  {   \"id\": \"t3\",   \"input\": [    \"Recognized\",    \"Susceptible\"   ],   \"output\": [    \"Recognized\",    \"Infected\"   ],   \"properties\": {    \"name\": \"t3\"   }  },  {   \"id\": \"t4\",   \"input\": [    \"Infected\",    \"Susceptible\"   ],   \"output\": [    \"Infected\",    \"Infected\"   ],   \"properties\": {    \"name\": \"t4\"   }  },  {   \"id\": \"t5\",   \"input\": [    \"Infected\"   ],   \"output\": [    \"Diagnosed\"   ],   \"properties\": {    \"name\": \"t5\"   }  },  {   \"id\": \"t6\",   \"input\": [    \"Infected\"   ],   \"output\": [    \"Ailing\"   ],   \"properties\": {    \"name\": \"t6\"   }  },  {   \"id\": \"t7\",   \"input\": [    \"Infected\"   ],   \"output\": [    \"Healed\"   ],   \"properties\": {    \"name\": \"t7\"   }  },  {   \"id\": \"t8\",   \"input\": [    \"Diagnosed\"   ],   \"output\": [    \"Recognized\"   ],   \"properties\": {    \"name\": \"t8\"   }  },  {   \"id\": \"t9\",   \"input\": [    \"Diagnosed\"   ],   \"output\": [    \"Healed\"   ],   \"properties\": {    \"name\": \"t9\"   }  },  {   \"id\": \"t10\",   \"input\": [    \"Ailing\"   ],   \"output\": [    \"Recognized\"   ],   \"properties\": {    \"name\": \"t10\"   }  },  {   \"id\": \"t11\",   \"input\": [    \"Ailing\"   ],   \"output\": [    \"Healed\"   ],   \"properties\": {    \"name\": \"t11\"   }  },  {   \"id\": \"t12\",   \"input\": [    \"Ailing\"   ],   \"output\": [    \"Threatened\"   ],   \"properties\": {    \"name\": \"t12\"   }  },  {   \"id\": \"t13\",   \"input\": [    \"Recognized\"   ],   \"output\": [    \"Threatened\"   ],   \"properties\": {    \"name\": \"t13\"   }  },  {   \"id\": \"t14\",   \"input\": [     \"Recognized\"    ],    \"output\": [     \"Healed\"    ],    \"properties\": {     \"name\": \"t14\"    }   },   {    \"id\": \"t15\",    \"input\": [     \"Threatened\"    ],    \"output\": [     \"Extinct\"    ],    \"properties\": {     \"name\": \"t15\"    }   },   {    \"id\": \"t16\",    \"input\": [     \"Threatened\"    ],    \"output\": [     \"Healed\"    ],    \"properties\": {     \"name\": \"t16\"    }   }  ] }, \"semantics\": {  \"ode\": {   \"rates\": [    {     \"target\": \"t1\",     \"expression\": \"Diagnosed*Susceptible*beta\",     \"expression_mathml\": \"<apply><times/><ci>Diagnosed</ci><ci>Susceptible</ci><ci>beta</ci></apply>\"    },    {     \"target\": \"t2\",     \"expression\": \"Ailing*Susceptible*gamma\",     \"expression_mathml\": \"<apply><times/><ci>Ailing</ci><ci>Susceptible</ci><ci>gamma</ci></apply>\"    },    {     \"target\": \"t3\",     \"expression\": \"Recognized*Susceptible*delta\",     \"expression_mathml\": \"<apply><times/><ci>Recognized</ci><ci>Susceptible</ci><ci>delta</ci></apply>\"    },    {     \"target\": \"t4\",     \"expression\": \"Infected*Susceptible*alpha\",     \"expression_mathml\": \"<apply><times/><ci>Infected</ci><ci>Susceptible</ci><ci>alpha</ci></apply>\"    },    {     \"target\": \"t5\",     \"expression\": \"Infected*epsilon\",     \"expression_mathml\": \"<apply><times/><ci>Infected</ci><ci>epsilon</ci></apply>\"    },    {     \"target\": \"t6\",     \"expression\": \"Infected*zeta\",     \"expression_mathml\": \"<apply><times/><ci>Infected</ci><ci>zeta</ci></apply>\"    },    {     \"target\": \"t7\",     \"expression\": \"Infected*lambda\",     \"expression_mathml\": \"<apply><times/><ci>Infected</ci><ci>lambda</ci></apply>\"    },    {     \"target\": \"t8\",     \"expression\": \"Diagnosed*eta\",     \"expression_mathml\": \"<apply><times/><ci>Diagnosed</ci><ci>eta</ci></apply>\"    },    {     \"target\": \"t9\",     \"expression\": \"Diagnosed*rho\",     \"expression_mathml\": \"<apply><times/><ci>Diagnosed</ci><ci>rho</ci></apply>\"    },    {     \"target\": \"t10\",     \"expression\": \"Ailing*theta\",     \"expression_mathml\": \"<apply><times/><ci>Ailing</ci><ci>theta</ci></apply>\"    },    {     \"target\": \"t11\",     \"expression\": \"Ailing*kappa\",     \"expression_mathml\": \"<apply><times/><ci>Ailing</ci><ci>kappa</ci></apply>\"    },    {     \"target\": \"t12\",     \"expression\": \"Ailing*mu\",     \"expression_mathml\": \"<apply><times/><ci>Ailing</ci><ci>mu</ci></apply>\"    },    {     \"target\": \"t13\",     \"expression\": \"Recognized*nu\",     \"expression_mathml\": \"<apply><times/><ci>Recognized</ci><ci>nu</ci></apply>\"    },    {     \"target\": \"t14\",     \"expression\": \"Recognized*xi\",     \"expression_mathml\": \"<apply><times/><ci>Recognized</ci><ci>xi</ci></apply>\"    },    {     \"target\": \"t15\",     \"expression\": \"Threatened*tau\",     \"expression_mathml\": \"<apply><times/><ci>Threatened</ci><ci>tau</ci></apply>\"    },    {     \"target\": \"t16\",     \"expression\": \"Threatened*sigma\",     \"expression_mathml\": \"<apply><times/><ci>Threatened</ci><ci>sigma</ci></apply>\"    }   ],   \"initials\": [    {     \"target\": \"Susceptible\",     \"expression\": \"0.999996300000000\",     \"expression_mathml\": \"<cn>0.99999629999999995</cn>\"    },    {     \"target\": \"Diagnosed\",     \"expression\": \"3.33333333000000e-7\",     \"expression_mathml\": \"<cn>3.33333333e-7</cn>\"    },    {     \"target\": \"Infected\",     \"expression\": \"3.33333333000000e-6\",     \"expression_mathml\": \"<cn>3.3333333299999999e-6</cn>\"    },    {     \"target\": \"Ailing\",     \"expression\": \"1.66666666000000e-8\",     \"expression_mathml\": \"<cn>1.6666666599999999e-8</cn>\"    },    {     \"target\": \"Recognized\",     \"expression\": \"3.33333333000000e-8\",     \"expression_mathml\": \"<cn>3.33333333e-8</cn>\"    },    {     \"target\": \"Healed\",     \"expression\": \"0.0\",     \"expression_mathml\": \"<cn>0.0</cn>\"    },    {     \"target\": \"Threatened\",     \"expression\": \"0.0\",     \"expression_mathml\": \"<cn>0.0</cn>\"    },    {     \"target\": \"Extinct\",     \"expression\": \"0.0\",     \"expression_mathml\": \"<cn>0.0</cn>\"    }   ],   \"parameters\": [    {     \"id\": \"beta\",     \"value\": 0.011,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.008799999999999999,       \"maximum\": 0.0132      }     }    },    {     \"id\": \"gamma\",     \"value\": 0.456,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.3648,       \"maximum\": 0.5472      }     }    },    {     \"id\": \"delta\",     \"value\": 0.011,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.008799999999999999,       \"maximum\": 0.0132      }     }    },    {     \"id\": \"alpha\",     \"value\": 0.57,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.45599999999999996,       \"maximum\": 0.6839999999999999      }     }    },    {     \"id\": \"epsilon\",     \"value\": 0.171,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.1368,       \"maximum\": 0.20520000000000002      }     }    },    {     \"id\": \"zeta\",     \"value\": 0.125,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.1,       \"maximum\": 0.15      }     }    },    {     \"id\": \"lambda\",     \"value\": 0.034,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.027200000000000002,       \"maximum\": 0.0408      }     }    },    {     \"id\": \"eta\",     \"value\": 0.125,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.1,       \"maximum\": 0.15      }     }    },    {     \"id\": \"rho\",     \"value\": 0.034,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.027200000000000002,       \"maximum\": 0.0408      }     }    },    {     \"id\": \"theta\",     \"value\": 0.371,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.2968,       \"maximum\": 0.4452      }     }    },    {     \"id\": \"kappa\",     \"value\": 0.017,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.013600000000000001,       \"maximum\": 0.0204      }     }    },    {     \"id\": \"mu\",     \"value\": 0.017,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.013600000000000001,       \"maximum\": 0.0204      }     }    },    {     \"id\": \"nu\",     \"value\": 0.027,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.0216,       \"maximum\": 0.0324      }     }    },    {     \"id\": \"xi\",     \"value\": 0.017,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.013600000000000001,       \"maximum\": 0.0204      }     }    },    {     \"id\": \"tau\",     \"value\": 0.01,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.008,       \"maximum\": 0.012      }     }    },    {     \"id\": \"sigma\",     \"value\": 0.017,     \"distribution\": {      \"type\": \"StandardUniform1\",      \"parameters\": {       \"minimum\": 0.013600000000000001,       \"maximum\": 0.0204      }     }    }   ],   \"observables\": [    {     \"id\": \"Cases\",     \"name\": \"Cases\",     \"expression\": \"Diagnosed + Recognized + Threatened\",     \"expression_mathml\": \"<apply><plus/><ci>Diagnosed</ci><ci>Recognized</ci><ci>Threatened</ci></apply>\"    },    {     \"id\": \"Hospitalizations\",     \"name\": \"Hospitalizations\",     \"expression\": \"Recognized + Threatened\",     \"expression_mathml\": \"<apply><plus/><ci>Recognized</ci><ci>Threatened</ci></apply>\"    },    {     \"id\": \"Deaths\",     \"name\": \"Deaths\",     \"expression\": \"Extinct\",     \"expression_mathml\": \"<ci>Extinct</ci>\"    }   ],   \"time\": {    \"id\": \"t\",    \"units\": {     \"expression\": \"day\",     \"expression_mathml\": \"<ci>day</ci>\"    }   }  } }, \"metadata\": {  \"annotations\": {   \"license\": \"CC0\",   \"authors\": [],   \"references\": [    \"pubmed:32322102\"   ],   \"time_scale\": null,   \"time_start\": null,   \"time_end\": null,   \"locations\": [],   \"pathogens\": [    \"ncbitaxon:2697049\"   ],   \"diseases\": [    \"doid:0080600\"   ],   \"hosts\": [    \"ncbitaxon:9606\"   ],   \"model_types\": [    \"mamo:0000028\"   ]  } }}",
+    "timespan": {"start": 0, "end": 90}
+  }
diff --git a/paths.yaml b/paths.yaml
deleted file mode 100644
index c0bb6da..0000000
--- a/paths.yaml
+++ /dev/null
@@ -1,176 +0,0 @@
-/simulate:
-  post:
-    summary: Perform a simulation
-    operationId: simulateModel
-    requestBody:
-      required: true
-      content:
-        application/json:
-          schema:
-            type: object
-            properties:
-              engine: 
-                type: string
-                enum: [sciml, ciemss]
-                example: sciml
-              model_config_id:
-                type: string
-                example: "ba8da8d4-047d-11ee-be56"
-              timespan:
-                type: object
-                properties:
-                  start:
-                    type: integer
-                    example: 0
-                  end:
-                    type: integer
-                    example: 0
-                items:
-                  type: integer
-                example: [0, 90]
-              extra:
-                description: optional extra system specific arguments for advanced use cases
-                type: object
-            required:
-              - engine
-              - model_config_id
-              - timespan
-    responses:
-      '200':
-        description: Simulation created successfully
-        content:
-          application/json:
-            schema:
-              type: object
-              properties:
-                simulation_id:
-                  type: string
-                  example: fc5d80e4-0483-11ee-be56
-
-/calibrate:
-  post:
-    summary: Calibrate a model to data then simulate
-    description: Calibrate a model and perform a "fitting" simulation over the time range of the calibration dataset and a simulation of a time range specified in `timespan` if `timespan` is specified. The SciML engine allows for calibration without additional simulation; in that case `timespan` is left off the payload.
-    operationId: calibratesimulateModel
-    requestBody:
-      required: true
-      content:
-        application/json:
-          schema:
-            type: object
-            properties:
-              engine: 
-                type: string
-                enum: [sciml, ciemss]
-                example: sciml
-              model_config_id:
-                type: string
-                example: "c1cd941a-047d-11ee-be56"
-              dataset:
-                type: object
-                properties:
-                  id: 
-                    type: string
-                    example: "cd339570-047d-11ee-be55"
-                  filename:
-                    type: string
-                    example: "dataset.csv"
-                  mappings:
-                    type: object
-              timespan:
-                type: object
-                properties:
-                  start:
-                    type: integer
-                    example: 0
-                  end:
-                    type: integer
-                    example: 0
-              extra:
-                description: optional extra system specific arguments for advanced use cases
-                type: object
-            required:
-              - engine
-              - model_config_id
-              - dataset_id
-    responses:
-      '200':
-        description: Calibration/simulation created successfully
-        content:
-          application/json:
-            schema:
-              type: object
-              properties:
-                simulation_id:
-                  type: string
-                  example: fc5d80e4-0483-11ee-be56
-/ensemble:
-  post:
-    summary: Perform an ensemble simulation
-    operationId: createEnsemble
-    requestBody:
-      required: true
-      content:
-        application/json:
-          schema:
-            type: object
-            properties:
-              engine: 
-                type: string
-                enum: [sciml, ciemss]
-                example: sciml              
-              model_config_ids:
-                type: array
-                items:
-                  type: string
-                example: ["ba8da8d4-047d-11ee-be56", "c1cd941a-047d-11ee-be56", "c4b9f88a-047d-11ee-be56"]
-              timespan:
-                type: object
-                properties:
-                  start:
-                    type: integer
-                    example: 0
-                  end:
-                    type: integer
-                    example: 0
-              extra:
-                description: optional extra system specific arguments for advanced use cases
-                type: object                   
-            required:
-              - engine
-              - model_config_id
-              - timespan
-    responses:
-      '200':
-        description: Ensemble created successfully
-        content:
-          application/json:
-            schema:
-              type: object
-              properties:
-                simulation_id:
-                  type: string
-                  example: fc5d80e4-0483-11ee-be56
-
-/status/{simulation_id}:
-  get:
-    summary: Retrieve the status of a simulation
-    operationId: getStatus
-    parameters:
-      - name: simulation_id
-        in: path
-        required: true
-        schema:
-          type: string
-          example: fc5d80e4-0483-11ee-be56
-    responses:
-      '200':
-        description: Status retrieved successfully
-        content:
-          application/json:
-            schema:
-              type: object
-              properties:
-                status:
-                  type: string
-                  enum: [queued, running, complete, error]
diff --git a/src/Settings.jl b/src/Settings.jl
deleted file mode 100644
index a18fc39..0000000
--- a/src/Settings.jl
+++ /dev/null
@@ -1,71 +0,0 @@
-"""
-Project-wide environment settings    
-"""
-module Settings
-
-"""
-The current settings for the project    
-"""
-settings = Dict{String, Any}()
-
-"""
-Add a setting from the enviroment    
-"""
-macro setting(name::Symbol, type::Union{DataType, Type}, default_value::Any)
-    fixed_default = isa(default_value, Symbol) ? eval(default_value) : default_value
-    if !isnothing(fixed_default)
-        @assert typeof(fixed_default) == type
-    end
-
-    env_key = String(name)
-
-    function grab_env() 
-        if in(env_key, keys(ENV))
-            if type == String
-                return ENV[env_key]
-            else
-                return parse(type, ENV[env_key])
-            end
-        else
-            if !isnothing(fixed_default)
-                ENV[env_key] = fixed_default
-                return fixed_default
-            else
-                throw("Variable not in environment and no default provided!")
-            end
-        end
-    end
-    :(settings[$env_key] = ($grab_env)())
-end
-
-"""
-Coerce `type` from `Symbol` to `Type`    
-"""
-macro setting(name::Symbol, type::Symbol, default_value::Any)
-    :(@setting(name, eval(type), fixed_default))
-end
-
-"""
-Set an option while inferring the type    
-"""
-macro setting(name::Symbol, default_value::Any)
-    type = typeof(default_value)
-    :(@setting($name, $type, $default_value))
-end
-
-"""
-Set a string option    
-"""
-macro setting(name::Symbol)
-    :(@setting($name, String, nothing))
-end
-
-@setting RABBITMQ_ENABLED false
-@setting RABBITMQ_LOGIN "guest"
-@setting RABBITMQ_PASSWORD "guest"
-@setting RABBITMQ_ROUTE "terarium"
-@setting RABBITMQ_PORT 5672
-@setting ENABLE_TDS true
-@setting TDS_URL "http://localhost:8001"
-
-end # module Settings
diff --git a/src/SimulationService.jl b/src/SimulationService.jl
index d81a4b4..1805342 100644
--- a/src/SimulationService.jl
+++ b/src/SimulationService.jl
@@ -1,77 +1,476 @@
-"""
-Interface for relevant ASKEM simulation libraries    
-"""
-module SimulationService 
-
-import AlgebraicPetri: LabelledPetriNet
-import Symbolics
-import Oxygen: serveparallel, resetstate, json, setschema, terminate, @post, @get
-import SwaggerMarkdown: build, @swagger, OpenAPI, validate_spec, openApiToDict, DOCS
-import YAML
-import JSON3 as JSON
-import JobSchedulers: scheduler_start, set_scheduler, scheduler_stop, submit!, job_query, result, generate_id, update_queue!, Job, JobSchedulers
+module SimulationService
 
-include("./service/Service.jl")
-import .Service: make_deterministic_run, retrieve_job
-include("./Settings.jl"); import .Settings: settings
+import AMQPClient
+import CSV
+import DataFrames: DataFrame
+import Dates
+import DifferentialEquations
+import Downloads: download
+import EasyConfig: EasyConfig, Config
+import HTTP
+import InteractiveUtils: subtypes
+import JobSchedulers
+import JSON3
+import MathML
+import ModelingToolkit: @parameters, substitute, Differential, Num, @variables, ODESystem, ODEProblem
+import OpenAPI
+import Oxygen
+import SciMLBase: SciMLBase, DiscreteCallback, solve
+import SwaggerMarkdown
+import UUIDs
+import YAML
 
 export start!, stop!
 
-OPENAPI_SPEC = "paths.yaml"
-
-"""
-Print out settings
-"""
-function health_check()
-    tds_url = settings["TDS_URL"]
-    mq_route = settings["RABBITMQ_ROUTE"]
-
-    return "Simulation-service. TDS_URL=$tds_url, RABBITMQ_ROUTE=$mq_route"
-end
-
-
-"""
-Specify endpoint to function mappings
-"""
-function register!()
-    @get "/" health_check
-    @get "/{element}/{uuid}" retrieve_job
-    @post "/{operation}" make_deterministic_run
-
-    info = Dict("title" => "Simulation Service", "version" => "0.6.0")
-    openAPI = OpenAPI("3.0.0", info)
-    openAPI.paths = YAML.load_file(OPENAPI_SPEC)
-    documentation = build(openAPI)
-    setschema(documentation)
-end
-
-"""
-Load API endpoints and start listening for sim run jobs
-"""
-function start!()
-    resetstate()
-    register!()
-    if Threads.nthreads() > 1
-        set_scheduler(
-            max_cpu=0.5,
-            max_mem=0.5,
-            update_second=0.05,
-            max_job=5000,
+#-----------------------------------------------------------------------------# notes
+# Example request to /{operation}:
+# {
+#   "model_config_id": "22739963-0f82-4d6f-aecc-1082712ed299",
+#   "timespan": {"start":0, "end":90},
+#   "engine": "sciml",
+#   "dataset": {
+#     "dataset_id": "adfasdf",
+#     "mappings": [], #optional column mappings... renames column headers
+#     "filename":"asdfa",
+#     }
+# }
+
+# ASKEM Model Representation: https://github.com/DARPA-ASKEM/Model-Representations/blob/main/petrinet/petrinet_schema.json
+
+# pre-rewrite commit: https://github.com/DARPA-ASKEM/simulation-service/tree/8e4dfc515fd6ddf53067fa535e37450daf1cd63c
+
+# OpenAPI spec: https://raw.githubusercontent.com/DARPA-ASKEM/simulation-api-spec/main/openapi.yaml
+
+#-----------------------------------------------------------------------------# __init__
+const rabbit_mq_channel = Ref{Any}() # TODO: replace Any with what AMQPClient.channel returns
+const server_url = Ref{String}()
+const openapi_spec = Ref{Config}()  # populated from https://github.com/DARPA-ASKEM/simulation-api-spec
+
+function __init__()
+    if Threads.nthreads() == 1
+        @warn "SimulationService.jl requires `Threads.nthreads() > 1`.  Use e.g. `julia --threads=auto`."
+    end
+
+    # RabbitMQ Channel to reuse
+    if SIMSERVICE_RABBITMQ_ENABLED
+        auth_params = Dict{String,Any}(
+            "MECHANISM" => "AMQPLAIN",
+            "LOGIN" => SIMSERVICE_RABBITMQ_LOGIN,
+            "PASSWORD" => SIMSERVICE_RABBITMQ_PASSWORD,
         )
-        scheduler_start()
-        serveparallel(host="0.0.0.0", async=true)
+        conn = AMQPClient.connection(; virtualhost="/", host="localhost", port=SIMSERVICE_RABBITMQ_PORT, auth_params)
+        rabbitmq_channel[] = AMQPClient.channel(conn, AMQPClient.UNUSED_CHANNEL, true)
+    end
+
+    server_url[] = "http://$SIMSERVICE_HOST:$SIMSERVICE_PORT"
+
+    spec = download("https://raw.githubusercontent.com/DARPA-ASKEM/simulation-api-spec/main/openapi.yaml")
+    openapi_spec[] = Config(YAML.load_file(spec))
+end
+
+#-----------------------------------------------------------------------------# start!
+function start!(; host=SIMSERVICE_HOST, port=SIMSERVICE_PORT, kw...)
+    SIMSERVICE_ENABLE_TDS || @warn "TDS is disabled.  Some features will not work."
+    stop!()  # Stop server if it's already running
+    server_url[] = "http://$host:$port"
+    JobSchedulers.scheduler_start()
+    JobSchedulers.set_scheduler(max_cpu=0.5, max_mem=0.5, update_second=0.05, max_job=5000)
+    Oxygen.resetstate()
+    # routes:
+    Oxygen.@get     "/"                 health
+    Oxygen.@get     "/status/{job_id}"  job_status
+    Oxygen.@get     "/result/{job_id}"  job_result
+    Oxygen.@post    "/{operation_name}" operation
+    Oxygen.@post    "/kill/{job_id}"    job_kill
+
+    # Below commented out because of: https://github.com/JuliaData/YAML.jl/issues/117 ????
+    # api = SwaggerMarkdown.OpenAPI("3.0", Dict(string(k) => v for (k,v) in openapi_spec[]))
+    # swagger = SwaggerMarkdown.build(api)
+    # Oxygen.mergeschema(swagger)
+
+    # server:
+    if Threads.nthreads() > 1  # true in production
+        Oxygen.serveparallel(; host, port, async=true, kw...)
     else
-        throw("The server is not parallelized. You need to start the REPL like `julia --threads 5`")
+        @warn "Server starting single-threaded.  This should only be used for testing. Try starting Julia via `julia --threads=auto`."
+        Oxygen.serve(; host, port, async=true, kw...)
     end
-    nothing
 end
 
-"""
-Shutdown server    
-"""
+#-----------------------------------------------------------------------------# stop!
 function stop!()
-    scheduler_stop()
-    terminate()
+    JobSchedulers.scheduler_stop()
+    Oxygen.terminate()
+end
+
+#-----------------------------------------------------------------------------# settings
+# Server
+SIMSERVICE_HOST                 = get(ENV, "SIMSERVICE_HOST", "0.0.0.0")
+SIMSERVICE_PORT                 = parse(Int, get(ENV, "SIMSERVICE_PORT", "8000"))
+
+# Terrarium Data Service (TDS)
+SIMSERVICE_ENABLE_TDS           = get(ENV, "SIMSERVICE_ENABLE_TDS", "true") == "true" #
+SIMSERVICE_TDS_URL              = get(ENV, "SIMSERVICE_TDS_URL", "http://localhost:8001")
+SIMSERVICE_TDS_RETRIES          = parse(Int, get(ENV, "SIMSERVICE_TDS_RETRIES", "10"))
+
+# RabbitMQ (Note: assumes running on localhost)
+SIMSERVICE_RABBITMQ_ENABLED     = get(ENV, "SIMSERVICE_RABBITMQ_ENABLED", "false") == "true" && SIMSERVICE_ENABLE_TDS
+SIMSERVICE_RABBITMQ_LOGIN       = get(ENV, "SIMSERVICE_RABBITMQ_LOGIN", "guest")
+SIMSERVICE_RABBITMQ_PASSWORD    = get(ENV, "SIMSERVICE_RABBITMQ_PASSWORD", "guest")
+SIMSERVICE_RABBITMQ_ROUTE       = get(ENV, "SIMSERVICE_RABBITMQ_ROUTE", "terarium")
+SIMSERVICE_RABBITMQ_PORT        = parse(Int, get(ENV, "SIMSERVICE_RABBITMQ_PORT", "5672"))
+
+#-----------------------------------------------------------------------------# utils
+JSON_HEADER = ["Content-Type" => "application/json"]
+
+get_json(url::String)::Config = JSON3.read(HTTP.get(url, JSON_HEADER).body, Config)
+
+jobhash(x::String) = reinterpret(Int, hash(x))
+
+# Print message when TDS unavailable, e.g. SIMSERVICE_ENABLE_TDS || no_tds(:myfunc; id="id", filename="result.csv")
+function no_tds(f; kw...)
+    msg = "TDS unavailable in function: `$f`\n"
+    for (k, v) in kw
+        msg *= "\n$k = $v"
+    end
+    @info msg
+end
+
+# TODO: more tests.  This is an important function.
+function ode_system_from_amr(obj::Config)
+    model = obj.model
+    ode = obj.semantics.ode
+
+    t = only(@variables t)
+    D = Differential(t)
+
+    statenames = [Symbol(s.id) for s in model.states]
+    statevars  = [only(@variables $s) for s in statenames]
+    statefuncs = [only(@variables $s(t)) for s in statenames]
+
+    # get parameter values and state initial values
+    paramnames = [Symbol(x.id) for x in ode.parameters]
+    paramvars = [only(@parameters $x) for x in paramnames]
+    paramvals = [x.value for x in ode.parameters]
+    sym_defs = paramvars .=> paramvals
+    initial_exprs = [MathML.parse_str(x.expression_mathml) for x in ode.initials]
+    initial_vals = map(x -> substitute(x, sym_defs), initial_exprs)
+
+    # build equations from transitions and rate expressions
+    rates = Dict(Symbol(x.target) => MathML.parse_str(x.expression_mathml) for x in ode.rates)
+    eqs = Dict(s => Num(0) for s in statenames)
+    for tr in model.transitions
+        ratelaw = rates[Symbol(tr.id)]
+        for s in tr.input
+            s = Symbol(s)
+            eqs[s] = eqs[s] - ratelaw
+        end
+        for s in tr.output
+            s = Symbol(s)
+            eqs[s] = eqs[s] + ratelaw
+        end
+    end
+
+    subst = Dict(statevars .=> statefuncs)
+    eqs = [D(statef) ~ substitute(eqs[state], subst) for (state, statef) in (statenames .=> statefuncs)]
+
+    ODESystem(eqs, t, statefuncs, paramvars; defaults = [statefuncs .=> initial_vals; sym_defs], name=Symbol(obj.name))
+end
+
+#-----------------------------------------------------------------------------# health: GET /
+health(::HTTP.Request) = (; status="ok", SIMSERVICE_RABBITMQ_ENABLED, SIMSERVICE_RABBITMQ_ROUTE,
+                            SIMSERVICE_ENABLE_TDS)
+
+#-----------------------------------------------------------------------------# job endpoints
+get_job(job_id::String) = JobSchedulers.job_query(jobhash(job_id))
+
+const NO_JOB =
+    HTTP.Response(404, ["Content-Type" => "text/plain; charset=utf-8"], body="Job does not exist")
+
+# /status/{job_id}
+function job_status(::HTTP.Request, job_id::String)
+    job = get_job(job_id)
+    isnothing(job) && return NO_JOB
+    SCHEDULER_TO_API_STATUS_MAP = Dict(
+        JobSchedulers.QUEUING => :queued,
+        JobSchedulers.RUNNING => :running,
+        JobSchedulers.DONE => :complete,
+        JobSchedulers.FAILED => :error,
+        JobSchedulers.CANCELLED => :cancelled,
+    )
+    return (; status = SCHEDULER_TO_API_STATUS_MAP[job.state])
+end
+
+# /result/{job_id}
+function job_result(request::HTTP.Request, job_id::String)
+    job = get_job(job_id)
+    isnothing(job) && return NO_JOB
+    job.state == :done ?
+        JobSchedulers.result(job) :
+        Response(400, ["Content-Type" => "text/plain; charset=utf-8"], body="Job has not completed")
+end
+
+# /kill/{job_id}
+function job_kill(request::HTTP.Request, job_id::String)
+    job = JobSchedulers.job_query(jobhash(job_id))
+    isnothing(job) && return NO_JOB
+    JobSchedulers.cancel!(job)
+    return HTTP.Response(200)
+end
+
+#-----------------------------------------------------------------------------# RabbitMQ
+# Content sent to client as JSON3.write(content)
+# If !SIMSERVICE_RABBITMQ_ENABLED, then just log the content
+function publish_to_rabbitmq(content)
+    SIMSERVICE_RABBITMQ_ENABLED || return no_tds(:publish_to_rabbitmq; content)
+    json = Vector{UInt8}(codeunits(JSON3.write(content)))
+    message = AMQPClient.Message(json, content_type="application/json")
+    AMQPClient.basic_publish(rabbitmq_channel[], message; exchange="", routing_key=SIMSERVICE_RABBITMQ_ROUTE)
+end
+publish_to_rabbitmq(; kw...) = publish_to_rabbitmq(Dict(kw...))
+
+
+
+
+#-----------------------------------------------------------------------------# Operations
+### Example of `obj` inside an OperationRequest
+# {
+#   "model_config_id": "22739963-0f82-4d6f-aecc-1082712ed299",
+#   "timespan": {"start":0, "end":90},
+#   "engine": "sciml",
+#   "dataset": {
+#     "dataset_id": "adfasdf",
+#     "mappings": [], #optional column mappings... renames column headers
+#     "filename":"asdfa",
+#     }
+# }
+
+
+# An Operation requires:
+#  1) an Operation(::OperationRequest) constructor
+#  2) a solve(::Operation; callback) method
+#
+# An Operation's fields should be separate from any request-specific things for ease of testing.
+abstract type Operation end
+
+
+#-----------------------------------------------------------------------------# OperationRequest
+# An OperationRequest contains all the information required to run an Operation
+# It's created immediately from a client request and we pass it around to keep all info together
+
+# endpoint:       required_keys...                      | optional_keys...
+    # /simulate:  (engine, model_config_id, timespan)   | extra
+    # /calibrate: (engine, model_config_id, dataset_id) | extra, timespan
+    # /ensemble:  (engine, model_config_ids, timespan)  | extra
+mutable struct OperationRequest{T <: Operation}
+    obj::Config         # untouched JSON from request body
+    required::Config    # required keys for endpoint
+    optional::Config    # optional keys for endpoint
+    model::Union{Config, Vector{Config}}  # ASKEM Model Representation(s)
+    df::Union{Nothing, DataFrame}
+    timespan::Union{Nothing, Tuple{Float64, Float64}}
+    job_id::String
+    operation_type::Type{T}
+    results::Any # result of solving operaiont
+    results_to_upload::Any  # processed results to send back to client (body, header, filename)
+
+    function OperationRequest(req::HTTP.Request, route::String)
+        @info "Creating OperationRequest: POST $route"
+        job_id = "sciml-$(UUIDs.uuid4())"
+         # TODO: make operation_dict const
+        operation_dict = Dict(replace(lowercase(string(T)), "simulationservice." => "") => T for T in subtypes(Operation))
+        operation_type = operation_dict[route]
+        obj = JSON3.read(req.body, Config)
+        schema = openapi_spec[].paths["/$route"].post.requestBody.content."application/json".schema
+        required = Config(k => obj[k] for k in schema.required)
+        optional = Config(k => obj[k] for k in setdiff(schema.properties, schema.required))
+        model = Config()
+        df = nothing
+        timespan = nothing
+        # EasyConfig.delete_empty!(obj)
+        for (k,v) in obj
+            if k == :model_config_id
+                model = SIMSERVICE_ENABLE_TDS ?
+                    get_json("$SIMSERVICE_TDS_URL/model_configurations/$v", Config) :
+                    Config()
+            elseif k == :model_config_ids
+                model = map(v) do id
+                    SIMSERVICE_ENABLE_TDS ?
+                        get_json("$SIMSERVICE_TDS_URL/model_configurations/$id", Config) :
+                        Config()
+                end
+            elseif k == :timespan
+                timespan = Tuple{Float64,Float64}(v)
+            elseif k == :dataset  # calibrate only.  keys(v) = (:id, :filename, :mappings)
+                if SIMSERVICE_ENABLE_TDS
+                    tds_url = "$SIMSERVICE_TDS_URL/datasets/$(v.id)/download-url?filename=$(v.filename)"
+                    s3_url = get_json(tds_url).url
+                    df = CSV.read(download(s3_url), DataFrame)
+                    rename!(df, v.mappings)
+                else
+                    df = DataFrame()
+                end
+
+            # Keys for testing only:
+            elseif k == :csv
+                df = CSV.read(codeunits(v), DataFrame)
+            elseif k == :local_csv  # local CSV file
+                df = CSV.read(v, DataFrame)
+            elseif k == :model  # JSON
+                model = v
+            end
+        end
+        new{operation_type}(obj, required, optional, model, df, timespan, job_id, operation_type, nothing, nothing)
+    end
+end
+
+#--------------------------------------------------------------------# IntermediateResults callback
+# Publish intermediate results to RabbitMQ with at least `every` seconds inbetween callbacks
+mutable struct IntermediateResults
+    last_callback::Dates.DateTime  # Track the last time the callback was called
+    every::Dates.TimePeriod  # Callback frequency e.g. `Dates.Second(5)`
+    job_id::String
+    function IntermediateResults(job_id::String; every=Dates.Second(5))
+        new(typemin(Dates.DateTime), every, job_id)
+    end
+end
+function (o::IntermediateResults)(integrator)
+    if o.last_callback + o.every ≤ Dates.now()
+        o.last_callback = Dates.now()
+        (; iter, t, u, uprev) = integrator
+        publish_to_rabbitmq(; iter=iter, time=t, params=u, abserr=norm(u - uprev), job_id=o.jobid,
+            retcode=SciMLBase.check_error(integrator))
+    end
+end
+get_callback(o::OperationRequest) = DiscreteCallback((args...) -> true, IntermediateResults(o.job_id))
+
+#--------------------------------------------------------------------------# Terrarium Data Service
+# Retry a function `n` times if error is HTTP 404
+default_retry_contion(ex) = ex isa HTTP.Exceptions.StatusError && ex.status == 404
+
+function retry_n(f; n::Int=SIMSERVICE_TDS_RETRIES, sleep_between::Int=1, condition=default_retry_contion)
+    res = nothing
+    for _ in 1:n
+        try
+            res = f()
+            break
+        catch ex
+            if condition(ex)
+                sleep(sleep_between)
+                continue
+            else
+                rethrow(ex)
+            end
+        end
+    end
+    return res
+end
+
+function update_job_status!(o::OperationRequest; kw...)
+    SIMSERVICE_ENABLE_TDS || return no_tds(:update_job_status!; kw...)
+    job_id = o.job_id
+    url = "$SIMSERVICE_TDS_URL/simulations/$job_id"  # joshday: rename simulations => jobs?
+    obj = retry_n(() -> get_json(url))
+    # If JobID is not found in the TDS, we will create it
+    obj = isnothing(obj) ? Dict() : Dict(obj)
+
+    body = JSON3.write(merge(Dict(obj), Dict(kw)))
+    HTTP.put(url, JSON_HEADER; body=body)
+end
+
+
+function upload_results!(o::OperationRequest)
+    isnothing(o.results) && error("No results.  Run `solve!(o)` first.")
+
+    # DataFrame result saved as CSV.  Everything else saved as JSON.
+    o.results_to_upload = if o.results isa DataFrame
+        io = IOBuffer()
+        CSV.write(io, o.results)
+        body = String(take!(io))
+        filename = "result.csv"
+        header = ["Content-Type" => "text/csv"]
+    else
+        body = JSON3.write(o.results)
+        filename = "result.json"
+        header = JSON_HEADER
+    end
+
+    if !SIMSERVICE_ENABLE_TDS
+        return no_tds(:upload_results!; filename, header, bodysummary=repr(summary(body)))
+    end
+
+    tds_url = "$SIMSERVICE_TDS_URL/simulations/sciml-$(o.job_id)/upload-url?filename=$filename)"
+    s3_url = get_json(tds_url).url
+    HTTP.put(s3_url, header; body=body)
+end
+
+#-----------------------------------------------------------------------------# solve!
+function solve!(o::OperationRequest)
+    try
+        update_job_status!(o; status="running", start_time=time())
+        operation = o.operation_type(o)
+        callback = get_callback(o)
+        o.results = solve(operation; callback)
+        upload_results!(o)
+        update_job_status!(o; status="complete", complete_time=time())
+        return o.results_to_upload
+    catch ex
+        update_job_status!(o; status="error", error=string(ex))
+    end
+end
+
+#-----------------------------------------------------------------------------# POST /{operation}
+# For debugging.  When a job fails, you can check out last_operation[] and last_job[].
+last_operation = Ref{OperationRequest}()
+last_job = Ref{JobSchedulers.Job}()
+
+# TODO: add try-catch back in?  It's useful for debugging to leave it out.
+function operation(req::HTTP.Request, operation_name::String)
+    # try
+        o = OperationRequest(req, operation_name)
+        @info "Scheduling Job: $(o.job_id)"
+        job = JobSchedulers.Job(@task(solve!(o)))
+        job.id = jobhash(o.job_id)
+        JobSchedulers.submit!(job)
+
+        last_operation[] = o    # For debugging
+        last_job[] = job        # For debugging
+
+        body = JSON3.write((; simulation_id = o.job_id))
+        return HTTP.Response(201, ["Content-Type" => "application/json; charset=utf-8"], body; request=req)
+    # catch ex
+    #     return HTTP.Response(500, ["Content-Type" => "application/json; charset=utf-8"], JSON3.write((; error=string(ex))))
+    # end
+end
+
+
+#-----------------------------------------------------------------------------# simulate
+struct Simulate <: Operation
+    sys::ODESystem
+    timespan::Tuple{Float64, Float64}
+end
+
+Simulate(o::OperationRequest) = Simulate(ode_system_from_amr(o.model), o.timespan)
+
+function solve(op::Simulate; kw...)
+    # joshday: What does providing `u0 = []` do?  Don't we know what u0 is from AMR?
+    prob = ODEProblem(op.sys, [], op.timespan, saveat=1)
+    sol = solve(prob; progress = true, progress_steps = 1, kw...)
+    DataFrame(sol)
+end
+
+#-----------------------------------------------------------------------------# calibrate
+struct Calibrate <: Operation
+    # TODO
+end
+Calibrate(o::OperationRequest) = error("TODO")
+solve(o::Calibrate; callback) = error("TODO")
+
+#-----------------------------------------------------------------------------# ensemble
+struct Ensemble <: Operation
+    # TODO
 end
+Ensemble(o::OperationRequest) = error("TODO")
+solve(o::Ensemble; callback) = error("TODO")
 
-end # module SimulationService
+end # module
diff --git a/src/contracts/Available.jl b/src/contracts/Available.jl
deleted file mode 100644
index 7dcead7..0000000
--- a/src/contracts/Available.jl
+++ /dev/null
@@ -1,70 +0,0 @@
-"""
-Operations interface for the simulation service
-"""
-module Available
-
-import CSV
-import AlgebraicPetri: LabelledPetriNet, AbstractPetriNet
-import DataFrames: DataFrame
-
-include("./ProblemInputs.jl"); import .ProblemInputs: conversions_for_valid_inputs
-include("./SystemInputs.jl"); import .SystemInputs: Context
-include("../operations/Operations.jl"); import .Operations
-include("../Settings.jl"); import .Settings: settings
-
-export available_operations
-
-available_operations = Dict{String, Function}()
-
-"""
-Retrieve internal atomic operations
-"""
-function get_operation(operation::Symbol)
-    if in(operation, names(Operations; all=false, imported=true))
-        return getfield(Operations, operation)
-    else
-        return nothing
-    end
-end
-
-function simulate(;
-    model,
-    timespan=(0.0, 100.0)::Tuple{Float64,Float64},
-    context
-)
-    Dict("result" => get_operation(:simulate)(;model=model, timespan=timespan, context))
-end
-
-available_operations["simulate"] = simulate
-
-function calibrate_then_simulate(; 
-    model,
-    dataset::DataFrame,
-    timespan::Union{Nothing, Tuple{Float64, Float64}} = nothing,
-    context,
-)
-    results = Dict{String, Any}()
-    calibrated_params = get_operation(:calibrate)(;model=model, dataset=dataset, context=context)
-    results["parameters"] = calibrated_params
-    if in(NaN, values(calibrated_params)) 
-        return results
-    end
-    for (sym, val) in calibrated_params
-        model.defaults[sym] = val
-    end
-    tmin, tmax = (dataset.timestep[1], dataset.timestep[end])
-    results["simulation"] = get_operation(:simulate)(;model=model, timespan=(tmin, tmax), context=context)
-    if isnothing(timespan)
-        return results
-    end
-    results["extra-simulation"] = get_operation(:simulate)(;model=model, timespan=timespan, context=context)
-    results
-end
-
-available_operations["calibrate"] = calibrate_then_simulate
-
-
-
-
-
-end # module Available
diff --git a/src/contracts/Interface.jl b/src/contracts/Interface.jl
deleted file mode 100644
index 1f97d3a..0000000
--- a/src/contracts/Interface.jl
+++ /dev/null
@@ -1,37 +0,0 @@
-"""
-SciML Operations interface for the simulation service
-"""
-module Interface
-
-import CSV
-
-include("./ProblemInputs.jl"); import .ProblemInputs: conversions_for_valid_inputs
-include("./SystemInputs.jl"); import .SystemInputs: Context
-include("./Available.jl"); import .Available: available_operations
-include("../operations/Operations.jl"); import .Operations
-include("../Settings.jl"); import .Settings: settings
-
-export use_operation, available_operations, conversions_for_valid_inputs, Context
-
-"""
-Return an operation wrapped with necessary handlers    
-"""
-function use_operation(context::Context)
-    operation = available_operations[string(context.operation)]
-
-    method = collect(methods(operation))[1]
-    inputs = ccall(:jl_uncompress_argnames, Vector{Symbol}, (Any,), method.slot_syms)[2:end]
-    
-                
-    # NOTE: This runs inside the job so we can't use it to validate on request ATM
-    function coerced_operation(arglist::Dict{Symbol, Any}) 
-        # TODO(five): Fail properly on extra params
-        fixed_args = Dict(
-           name => conversions_for_valid_inputs[name](arglist[name])
-           for name in inputs if name != :context
-        )
-        operation(;fixed_args..., context=context)
-    end
-end
-
-end # module Interface
diff --git a/src/contracts/ProblemInputs.jl b/src/contracts/ProblemInputs.jl
deleted file mode 100644
index 8034c5b..0000000
--- a/src/contracts/ProblemInputs.jl
+++ /dev/null
@@ -1,87 +0,0 @@
-"""
-User-provided, problem-specific inputs
-"""
-module ProblemInputs
-
-import AlgebraicPetri: PropertyLabelledPetriNet, LabelledPetriNet, AbstractPetriNet
-import Catlab.CategoricalAlgebra: parse_json_acset
-import ModelingToolkit: @parameters, substitute, Differential, Num, @variables, ODESystem
-import DataFrames: DataFrame
-import CSV
-import JSON
-import MathML
-
-export conversions_for_valid_inputs
-
-"""
-Transform string into dataframe before it is used as input
-"""
-coerce_dataset(val::String) = CSV.read(IOBuffer(val), DataFrame)
-
-"""
-Act as identity since the value is already coerced
-"""
-coerce_dataset(val::DataFrame) = val
-
-"""
-Transform payload in ASKEM model rep into an ODESystem
-"""
-function coerce_model(val)
-    obj = JSON.Parser.parse(val)
-    model = obj["model"]
-    ode = obj["semantics"]["ode"]
-
-    t = only(@variables t)
-    D = Differential(t)
-
-    statenames = [Symbol(s["id"]) for s in model["states"]]
-    statevars  = [only(@variables $s) for s in statenames]
-    statefuncs = [only(@variables $s(t)) for s in statenames]
-
-    # get parameter values and state initial values
-    paramnames = [Symbol(x["id"]) for x in ode["parameters"]]
-    paramvars = [only(@parameters $x) for x in paramnames]
-    paramvals = [x["value"] for x in ode["parameters"]]
-    sym_defs = paramvars .=> paramvals
-    initial_exprs = [MathML.parse_str(x["expression_mathml"]) for x in ode["initials"]]
-    initial_vals = map(x->substitute(x, sym_defs), initial_exprs)
-
-    # build equations from transitions and rate expressions
-    rates = Dict(Symbol(x["target"]) => MathML.parse_str(x["expression_mathml"]) for x in ode["rates"])
-    eqs = Dict(s => Num(0) for s in statenames)
-    for tr in model["transitions"]
-        ratelaw = rates[Symbol(tr["id"])]
-        for s in tr["input"]
-            s = Symbol(s)
-            eqs[s] = eqs[s] - ratelaw
-        end
-        for s in tr["output"]
-            s = Symbol(s)
-            eqs[s] = eqs[s] + ratelaw
-        end
-    end
-
-    subst = Dict(zip(statevars, statefuncs))
-    eqs = [D(statef) ~ substitute(eqs[state], subst) for (state, statef) in zip(statenames, statefuncs)]
-
-    ODESystem(eqs, t, statefuncs, paramvars; defaults = [statefuncs .=> initial_vals; sym_defs], name=Symbol(obj["name"]))
-end
-
-"""
-Coerce timespan
-"""
-coerce_timespan(val) = !isnothing(val) ? Tuple{Float64,Float64}(val) : nothing
-
-"""
-Inputs converted from payload to arguments expanded in operations.
-"""
-conversions_for_valid_inputs = Dict{Symbol,Function}(
-    :model => coerce_model,
-    :models => val -> coerce_model.(val),
-    :timespan => coerce_timespan,
-    :params => (val) -> Dict{String,Float64}(val),
-    :initials => (val) -> Dict{String,Float64}(val),
-    :dataset => coerce_dataset,
-)
-
-end # module ProblemInputs
diff --git a/src/contracts/SystemInputs.jl b/src/contracts/SystemInputs.jl
deleted file mode 100644
index dba521c..0000000
--- a/src/contracts/SystemInputs.jl
+++ /dev/null
@@ -1,30 +0,0 @@
-"""
-System provided information that is made available to operations    
-"""
-module SystemInputs
-
-export Context
-
-struct Context
-    job_id::Int64
-    interactivity_hook::Function
-    operation::Symbol
-    raw_args
-    function Context(job_id::Int64, interactivity_hook::Function, operation::Symbol, raw_args)
-        new(job_id, interactivity_hook, operation, deepcopy(raw_args))
-    end
-end 
-
-function Base.iterate(context::Context, state=nothing)
-    if isnothing(state)
-        state = Set(fieldnames(Context))
-    end
-    unused = intersect(Set(fieldnames(Context)), state)
-    if isempty(unused)
-        return nothing
-    end
-    chosen_field = pop!(unused)
-    (chosen_field=>getfield(context, chosen_field), unused)
-end
-
-end # module SystemInputs
\ No newline at end of file
diff --git a/src/operations/Operations.jl b/src/operations/Operations.jl
deleted file mode 100644
index 8b4b354..0000000
--- a/src/operations/Operations.jl
+++ /dev/null
@@ -1,137 +0,0 @@
-"""
-SciML Operation definitions
-"""
-module Operations
-
-import AlgebraicPetri: LabelledPetriNet, AbstractPetriNet
-import DataFrames: DataFrame, names
-import DifferentialEquations: solve, DiscreteCallback
-import ModelingToolkit: remake, ODESystem, ODEProblem
-import Symbolics: Num, getname, @variables, substitute
-import SymbolicIndexingInterface: states, parameters
-import EasyModelAnalysis
-import SciMLBase
-
-using LinearAlgebra: norm
-using Dates: Dates, DateTime, now
-
-# import MathML
-
-# NOTE: Operations exposed to the rest of the Simulation Service
-export simulate, calibrate, ensemble
-
-
-#-----------------------------------------------------------------------------# utils
-
-# Transform model representation into a SciML ODEProblem
-function to_prob(sys, tspan)
-    ODEProblem(sys, [], tspan, saveat=1)
-end
-
-# Separate keys and values
-unzip(d::Dict) = (collect(keys(d)), collect(values(d)))
-
-# Unzip a collection of pairs
-unzip(ps) = first.(ps), last.(ps)
-
-
-# Transform list of args into Symbolics variables
-function symbolize_args(incoming_values, sys_vars)
-    pairs = collect(incoming_values)
-    ks, values = unzip(pairs)
-    symbols = Symbol.(ks)
-    vars_as_symbols = getname.(sys_vars)
-    symbols_to_vars = Dict(vars_as_symbols .=> sys_vars)
-    Dict(
-        [
-            symbols_to_vars[vars_as_symbols[findfirst(x -> x == symbol, vars_as_symbols)]]
-            for symbol in symbols
-        ] .=> values
-    )
-end
-
-
-# Generate data and timestep list from a dataframe
-function select_data(df::DataFrame)
-    data = Dict(
-        key => df[!, key]
-        for key in names(df) if key != "timestep"
-    )
-    df[!, "timestep"], data
-end
-
-#-----------------------------------------------------------------------------# IntermediateReulsts callback
-mutable struct IntermediateResults
-    last_callback::DateTime  # Track the last time the callback was called
-    every::Dates.TimePeriod  # Callback frequency e.g. `Dates.Second(5)`
-    context  # ::Union{Nothing, Context} (context.interactivity_hook sends Dict to frontend via RabbitMQ)
-end
-IntermediateResults(context; every=Dates.Second(5)) = IntermediateResults(typemin(DateTime), every, context)
-
-intermediate_results_to_rabbitmq(integrator) = Dict(
-    :iter => integrator.iter,
-    :time => integrator.t,
-    :params => integrator.u,
-    :abserr => norm(integrator.u - integrator.uprev),
-    :retcode => Symbol(SciMLBase.check_error(integrator)),
-)
-
-function (o::IntermediateResults)(integrator)
-    if o.last_callback + o.every ≤ now()
-        o.last_callback = now()
-        d = intermediate_results_to_rabbitmq(integrator)
-        if isnothing(o.context)
-            @info "IntermediateResults: $(NamedTuple(d))"
-        else
-            d[:job_id] = o.context.job_id
-            o.context.interactivity_hook(d)
-        end
-    end
-end
-
-#-----------------------------------------------------------------------------# simulate
-function simulate(; model::ODESystem, timespan::Tuple{Float64,Float64}=(0.0, 100.0), context=nothing)
-    prob = to_prob(model, timespan)
-    callback = DiscreteCallback((args...) -> true, IntermediateResults(context))
-    sol = solve(prob; progress = true, progress_steps = 1, callback)
-    DataFrame(sol)
-end
-
-#-----------------------------------------------------------------------------# calibrate
-function calibrate(; model, dataset::DataFrame, context=nothing)
-    timesteps, data = select_data(dataset)
-    prob = to_prob(model, extrema(timesteps))
-    p = Vector{Pair{Num, Float64}}([Num(param) => model.defaults[param] for param in parameters(model)])
-    @show p
-    data = symbolize_args(data, states(model))
-    fitp = EasyModelAnalysis.datafit(prob, p, timesteps, data)
-    @info fitp
-    # DataFrame(fitp)
-    fitp
-end
-
-#-----------------------------------------------------------------------------# ensemble
-function ensemble(; models::AbstractArray{AbstractPetriNet}, timespan::Tuple{Float64, Float64} = (0.0, 100.0), context=nothing)
-    throw("ENSEMBLE IS NOT YET IMPLEMENTED")
-end
-
-
-# joshday: what is this function?
-"long running functions like global_datafit and sensitivity wrappers will need to be refactored to share callback info incrementally"
-function _global_datafit(; model::LabelledPetriNet,
-    parameter_bounds::Dict{String,Tuple{Float64,Float64}},
-    params::Dict{String,Float64},
-    initials::Dict{String,Float64},
-    t::Vector{Number},
-    data::Dict{String,Vector{Float64}}
-)::DataFrame
-    ks, vs = unzip(parameter_bounds)
-    @assert all(issorted.(vs))
-    prob = to_prob(model, params, initials, extrema(t))
-    sys = prob.f.sys
-    p = symbolize_args(params, parameters(sys)) # this ends up being a second call to symbolize_args 🤷
-    fitp = global_datafit(prob, collect(p), t, data)
-    DataFrame(fitp)
-end
-
-end # module Operations
diff --git a/src/service/ArgIO.jl b/src/service/ArgIO.jl
deleted file mode 100644
index 8690e94..0000000
--- a/src/service/ArgIO.jl
+++ /dev/null
@@ -1,122 +0,0 @@
-"""
-Provide external awareness / service-related side-effects to SciML operations
-"""
-module ArgIO
-
-import Symbolics
-import DataFrames: rename!, transform!, DataFrame, ByRow
-import CSV
-import HTTP: Request
-import JSON3 as JSON
-
-include("../Settings.jl"); import .Settings: settings
-include("./AssetManager.jl"); import .AssetManager: fetch_dataset, fetch_model, update_simulation, upload
-
-export prepare_input, prepare_output
-
-
-# """
-# Transform requests into arguments to be used by operation
-
-# Optionally, IDs are hydrated with the corresponding entity from TDS.
-# """
-function prepare_input(args; context...)
-    if settings["ENABLE_TDS"]
-        update_simulation(context[:job_id], Dict([:status=>"running", :start_time => time()]))
-    end
-    if in(:timespan, keys(args))
-        args[:timespan] = (args[:timespan]["start"], args[:timespan]["end"])
-    end
-    if in(:model_config_id, keys(args))
-        args[:model] = fetch_model(args[:model_config_id])
-    end
-    if in(:dataset, keys(args)) && !isa(args[:dataset], String)
-        if !isa(args[:dataset], String)
-            args[:dataset] = fetch_dataset(args[:dataset]["id"], args[:dataset]["filename"], get(args[:dataset], "mappings", Dict()))
-        else
-            io = IOBuffer(args[:dataset])
-            seekstart(io)
-            args[:dataset] = CSV.read(io, DataFrame)
-        end
-    end
-    if in(:model_config_ids, keys(args))
-        args[:models] = fetch_model.(map(string, args[:model_ids]))
-    end
-    if !in(:timespan, keys(args))
-        args[:timespan] = nothing
-    end
-    if in(:extra, keys(args))
-        for (key, value) in Dict(args[:extra])
-            args[Symbol(key)] = value
-        end
-    end
-    args
-end
-
-# """
-# Generate a `prepare_input` function that is already contextualized
-# """
-function prepare_input(context)
-    function contextualized_prepare_input(args)
-        prepare_input(args; context...)
-    end
-end
-
-# """
-# Normalize the header of the resulting dataframe and return a CSV
-
-# Optionally, the CSV is saved to TDS instead an the coreresponding ID is returned.
-# """
-function prepare_output(dataframe::DataFrame; name="0", context...)
-    stripped_names = names(dataframe) .=> (r -> replace(r, "(t)"=>"")).(names(dataframe))
-    rename!(dataframe, stripped_names)
-    if !settings["ENABLE_TDS"]
-        io = IOBuffer()
-        # TODO(five): Write to remote server
-        CSV.write(io, dataframe)
-        return String(take!(io))
-    else
-        return upload(dataframe, context[:job_id]; name=name)
-    end
-end
-
-# """
-# Coerces NaN values to nothing for each parameter
-# """
-function prepare_output(params::Vector{Pair{Symbolics.Num, Float64}}; name="0", context...)
-    nan_to_nothing(value) = isnan(value) ? nothing : value
-    fixed_params = Dict(key => nan_to_nothing(value) for (key, value) in params)
-    if settings["ENABLE_TDS"]
-        return upload(fixed_params, context[:job_id]; name=name)
-    else
-        params
-    end
-end
-
-
-# """
-# Coerces NaN values to nothing for each parameter
-# """
-function prepare_output(results::Dict{String}; context...)
-    prepared_outputs = []
-    for (name, value) in results
-        append!(prepared_outputs, [prepare_output(value; context..., name=name)])
-    end
-    if settings["ENABLE_TDS"]
-        update_simulation(context[:job_id], Dict([:status => "complete", :result_files => prepared_outputs, :completed_time => time()]))
-    else
-        results
-    end
-end
-
-# """
-# Generate a `prepare_output` function that is already contextualized
-# """
-function prepare_output(context)
-    function contextualized_prepare_output(arg)
-        prepare_output(arg; context...)
-    end
-end
-
-
-end
diff --git a/src/service/AssetManager.jl b/src/service/AssetManager.jl
deleted file mode 100644
index 03daa6c..0000000
--- a/src/service/AssetManager.jl
+++ /dev/null
@@ -1,107 +0,0 @@
-"""
-Asset fetching from TDS
-"""
-module AssetManager
-
-import DataFrames: rename!, DataFrame
-import CSV, Downloads, HTTP
-import OpenAPI.Clients: Client
-import JSON3 as JSON
-import UUIDs: UUID
-include("../Settings.jl"); import .Settings: settings
-
-export fetch_dataset, fetch_model, update_simulation, upload
-
-"""
-Generate UUID with prefix    
-"""
-function gen_uuid(job_id)
-    "sciml-" * string(UUID(job_id))
-end
-
-"""
-Return model JSON as string from TDS by ID
-"""
-function fetch_model(model_id::String)
-    response = HTTP.get("$(settings["TDS_URL"])/model_configurations/$model_id", ["Content-Type" => "application/json"])
-    body = response.body |> JSON.read ∘ String
-    JSON.write(body.configuration)
-end
-
-"""
-Return csv from TDS by ID
-"""
-function fetch_dataset(dataset_id::String, filename::String, mappings::Dict=Dict())
-    # TODO(five): Select name dynamicially
-    url = "$(settings["TDS_URL"])/datasets/$dataset_id/download-url?filename=$filename"
-    response = HTTP.get(url, ["Content-Type" => "application/json"])
-    body = response.body |> JSON.read ∘ String
-    io = IOBuffer()
-    Downloads.download(body.url, io)
-    seekstart(io)
-    dataframe = CSV.read(io, DataFrame)
-    for (from, to) in mappings rename!(dataframe, Symbol(from)=>Symbol(to)) end
-    dataframe
-end
-
-"""
-Report the job as completed    
-"""
-function update_simulation(job_id::Int64, updated_fields::Dict{Symbol})
-    uuid = gen_uuid(job_id)
-    response = nothing
-    remaining_retries = 10 # TODO(five)??: Set this with environment variable
-    while remaining_retries != 0 
-        remaining_retries -= 1
-        sleep(2)
-        try
-            response = HTTP.get("$(settings["TDS_URL"])/simulations/$uuid", ["Content-Type" => "application/json"])
-            break
-        catch exception
-            if isa(exception,HTTP.Exceptions.StatusError) && exception.status == 404
-                response = nothing
-            else
-                throw(exception)
-            end
-        end
-    end
-    if isnothing(response)
-            throw("Job cannot finish because it does not exist in TDS")
-    end
-    body = response.body |> Dict ∘ JSON.read ∘ String
-    for field in updated_fields
-        body[field.first] = field.second
-    end
-    HTTP.put("$(settings["TDS_URL"])/simulations/$uuid", ["Content-Type" => "application/json"], body=JSON.write(body))
-end
-
-"""
-Upload a CSV to S3/MinIO
-"""
-function upload(output::DataFrame, job_id; name="result")
-    uuid = gen_uuid(job_id)
-    response = HTTP.get("$(settings["TDS_URL"])/simulations/$uuid/upload-url?filename=$name.csv", ["Content-Type" => "application/json"])
-    # TODO(five): Stream so there isn't duplication
-    io = IOBuffer()
-    CSV.write(io, output)
-    seekstart(io)
-    url = JSON.read(response.body)[:url]
-    HTTP.put(url, ["Content-Type" => "application/json"], body = take!(io))
-    bare_url = split(url, "?")[1]
-    bare_url
-end
-
-
-"""
-Upload a JSON to S3/MinIO
-"""
-function upload(output::Dict, job_id; name="result")
-    uuid = gen_uuid(job_id)
-    response = HTTP.get("$(settings["TDS_URL"])/simulations/$uuid/upload-url?filename=$name.json", ["Content-Type" => "application/json"])
-    url = JSON.read(response.body)[:url]
-    HTTP.put(url, ["Content-Type" => "application/json"], body = JSON.write(output))
-    bare_url = split(url, "?")[1]
-    bare_url
-end
-
-end # module AssetManager
diff --git a/src/service/Execution.jl b/src/service/Execution.jl
deleted file mode 100644
index acf7a9f..0000000
--- a/src/service/Execution.jl
+++ /dev/null
@@ -1,115 +0,0 @@
-"""
-Manage jobs
-"""
-module Execution
-
-import HTTP: Request, Response
-import JSON3 as JSON
-import Oxygen: json
-import JobSchedulers: submit!, job_query, result, generate_id, Job, JobSchedulers
-import UUIDs: UUID
-
-include("../contracts/Interface.jl"); import .Interface: available_operations, use_operation, Context
-include("./AssetManager.jl"); import .AssetManager: update_simulation
-include("./ArgIO.jl"); import .ArgIO: prepare_input, prepare_output
-include("./Queuing.jl"); import .Queuing: publish_to_rabbitmq
-include("../Settings.jl"); import .Settings: settings
-
-export make_deterministic_run, retrieve_job
-
-SCHEDULER_TO_API_STATUS_MAP = Dict(
-    JobSchedulers.QUEUING => :queued,
-    JobSchedulers.RUNNING => :running,
-    JobSchedulers.DONE => :complete,
-    JobSchedulers.FAILED => :error,
-    JobSchedulers.CANCELLED => :cancelled,
-)
-
-"""
-Generate the task to run with the correct context    
-"""
-function contextualize_prog(context)
-    function prog(args)
-        try
-            (prepare_output(context) ∘ use_operation(context) ∘ prepare_input(context))(args)
-        catch exception
-            if settings["ENABLE_TDS"]
-                update_simulation(context.job_id, Dict([:status=>"error"]))
-            end
-            rethrow(exception)
-        end
-    end
-end
-
-# Coerce request object to dict
-make_deterministic_run(req::Request, operation::String) = make_deterministic_run(json(req, Dict{Symbol, Any}), operation)
-
-"""
-Schedule a sim run given an operation
-"""
-function make_deterministic_run(args, operation::String)
-    # TODO(five): Spawn remote workers and run jobs on them
-    if !in(operation, keys(available_operations))
-        return Response(
-            404,
-            ["Content-Type" => "text/plain; charset=utf-8"],
-            body="Operation not found"
-        )
-    end
-
-    publish_hook = settings["RABBITMQ_ENABLED"] ? publish_to_rabbitmq : (_...) -> nothing
-
-    context = Context(
-        generate_id(),
-        publish_hook,  
-        Symbol(operation),
-        args
-    )
-    prog = contextualize_prog(context)
-    sim_run = Job(@task(prog(args)))
-    sim_run.id = context.job_id
-    submit!(sim_run)
-    uuid = "sciml-" * string(UUID(sim_run.id))
-    Response(
-        201,
-        ["Content-Type" => "application/json; charset=utf-8"],
-        body=JSON.write("simulation_id" => uuid)
-    )
-end
-
-
-"""
-Get status of sim
-"""
-function retrieve_job(_, uuid::String, element::String)
-    id = Int64(UUID(split(uuid, "sciml-")[2]).value)
-    job = job_query(id)
-    if isnothing(job)
-        return Response(
-            404,
-            ["Content-Type" => "text/plain; charset=utf-8"],
-            body="Job does not exist"
-        )
-    end
-    if element == "status"
-        return Dict("status" => SCHEDULER_TO_API_STATUS_MAP[job.state])
-    elseif element == "result"
-        if job.state == :done
-            return result(job)
-        else
-            return Response(
-                400,
-                ["Content-Type" => "text/plain; charset=utf-8"],
-                body="Job has not completed"
-            )
-        end
-    else
-        return Response(
-            404,
-            ["Content-Type" => "text/plain; charset=utf-8"],
-            body="Element not found"
-        )
-    end
-end
-
-end # module Execution
diff --git a/src/service/Queuing.jl b/src/service/Queuing.jl
deleted file mode 100644
index a4714fa..0000000
--- a/src/service/Queuing.jl
+++ /dev/null
@@ -1,55 +0,0 @@
-"""
-RabbitMQ Integration    
-"""
-module Queuing
-
-import Logging: AbstractLogger, LogLevel
-import Logging
-import AMQPClient: amqps_configure, basic_publish, channel, connection, Message, AMQPS_DEFAULT_PORT, UNUSED_CHANNEL
-import JSON3 as JSON
-
-include("../Settings.jl"); import .Settings: settings
-
-"""
-Connect to channel    
-"""
-function get_channel()
-    conn = connection(; 
-        virtualhost="/", 
-        host="localhost", 
-        port=settings["RABBITMQ_PORT"], 
-        auth_params=Dict{String, Any}("MECHANISM"=>"AMQPLAIN", "LOGIN"=>settings["RABBITMQ_LOGIN"], "PASSWORD"=>settings["RABBITMQ_PASSWORD"]), 
-        #amqps=amqps_configure()
-    )
-    channel(conn, UNUSED_CHANNEL, true)
-end
-
-"""
-Publish JSON to RabbitMQ    
-"""
-function publish_to_rabbitmq(content)
-    chan = get_channel() # TODO(five): Don't recreate for each call
-    json = convert(Vector{UInt8}, codeunits(JSON.write(content)))
-    message = Message(json, content_type="application/json")
-    # TODO(five): Regen channel
-    basic_publish(chan, message; exchange="", routing_key=settings["RABBITMQ_ROUTE"])
-end
-
-"""
-Logger that calls an arbitrary hook on a message    
-"""
-struct MQLogger <: AbstractLogger
-    publish_hook::Function
-end
-
-"""
-MQLogger preloaded with RabbitMQ publishing    
-"""
-MQLogger() = MQLogger(publish_to_rabbitmq)
-
-Logging.shouldlog(::MQLogger, args...; kwargs...) = true
-Logging.min_enabled_level(::MQLogger) = LogLevel(0)
-Logging.handle_message(logger::MQLogger, level, message, args...; kwargs...) = logger.publish_hook(message)
-Logging.catch_exceptions(::MQLogger) = true
-
-end # module Queuing
diff --git a/src/service/Service.jl b/src/service/Service.jl
deleted file mode 100644
index 167f604..0000000
--- a/src/service/Service.jl
+++ /dev/null
@@ -1,12 +0,0 @@
-module Service
-
-import Reexport: @reexport
-include("../Settings.jl")
-
-include("./AssetManager.jl")
-include("./ArgIO.jl")
-include("./Queuing.jl")
-include("./Execution.jl")
-@reexport using .ArgIO, .AssetManager, .Queuing, .Execution
-
-end # module Service
diff --git a/test/ensemble.jl b/test/ensemble.jl
deleted file mode 100644
index 885dd73..0000000
--- a/test/ensemble.jl
+++ /dev/null
@@ -1,119 +0,0 @@
-
-dfc = CSV.read("cases.csv", DataFrame)
-dfd = CSV.read("deaths.csv", DataFrame)
-dfh = CSV.read("hosp.csv", DataFrame)
-function calibration_data(dfc, dfd, dfh; use_hosp=false)
-
-    us_ = dfc[dfc.location.=="US", :]
-    usd_ = dfd[dfd.location.=="US", :]
-    ush_ = dfh[dfh.location.=="US", :]
-
-    rename!(us_, :value => :cases)
-    rename!(usd_, :value => :deaths)
-    rename!(ush_, :value => :hosp)
-
-    if use_hosp
-        d_ = innerjoin(us_, usd_, ush_, on=:date, makeunique=true)
-        d = d_[:, [:date, :cases, :deaths, :hosp]]
-    else
-        d_ = innerjoin(us_, usd_, on=:date, makeunique=true)
-        d = d_[:, [:date, :cases, :deaths]]
-    end
-
-    us_ = d
-    sort!(us_, :date)
-    us = deepcopy(us_)
-    # us[!, :unix] = datetime2unix.(DateTime.(us.date))
-    insertcols!(us, 1, :unix => datetime2unix.(DateTime.(us.date)))
-    # us
-end
-covidhub = calibration_data(dfc, dfh, dfd, use_hosp=true)
-fitdata = covidhub[1:20, [:t, :cases, :deaths, :hosp]]
-jdata = objecttable(fitdata)
-write("fitdata.json", jdata)
-
-# todo global_datafit
-sir_fn = "/Users/anand/.julia/dev/simulation-scheduler/examples/sir.json"
-sird_fn = "/Users/anand/.julia/dev/simulation-scheduler/examples/sird.json"
-sirh_fn = "/Users/anand/.julia/dev/simulation-scheduler/examples/sirh.json"
-sirhd_fn = "/Users/anand/.julia/dev/simulation-scheduler/examples/sirhd.json"
-pns = sir, sird, sirh, sirhd = [read_json_acset(T, fn) for fn in (sir_fn, sird_fn, sirh_fn, sirhd_fn)]
-
-syss = sys1, sys2, sys3, sys4 = ODESystem.(pns)
-
-strat_fn = "/Users/anand/.julia/dev/ASKEM_Evaluation_Staging/docs/src/Scenario3/sirhd_renew_vax.json"
-sp = read_json_acset(LabelledPetriNet, strat_fn)
-@which ODESystem(sp)
-st_sys = ODESystem(sp)
-st_sts = states(st_sys)
-st_ps = parameters(st_sys)
-
-# this section demonstrates the difficulty of quickly building observed maps from stratified petrinets
-
-strat_st_vecs = eval.(Meta.parse.(String.(Symbolics.getname.(st_sts))))
-vsts = st_sts[findall(==("V"), last.(strat_st_vecs))]
-usts = st_sts[findall(==("U"), last.(strat_st_vecs))]
-ists = st_sts[findall(==("I"), first.(strat_st_vecs))]
-
-sidarthe = ODESystem(petri)
-@unpack Susceptible, Infected, Diagnosed, Ailing, Recognized, Threatened, Healed, Extinct = sidarthe
-S, I, D, A, R, T, H, E = Susceptible, Infected, Diagnosed, Ailing, Recognized, Threatened,
-Healed, Extinct
-Hospitalizations = Recognized + Threatened
-Cases = Diagnosed + Recognized + Threatened
-cases_data = map(sum, eachrow(df[:, ["Diagnosed(t)", "Recognized(t)", "Threatened(t)"]]))
-hospitalizations_data = map(sum, eachrow(df[:, ["Recognized(t)", "Threatened(t)"]]))
-df[!, "Cases(t)"] = cases_data
-df[!, "Hospitalizations(t)"] = hospitalizations_data
-df[!, "Extinct"] = hospitalizations_data
-sym_data = [=> df[:, "Susceptible(t)"]]
-
-
-sns = snames.(pns)
-all_sns = map(x -> string.(x), sns)
-tns = tnames.(pns)
-all_tns = map(x -> string.(x), tns)
-to_init(x) = x .=> rand(length(x))
-all_inits = to_init.(all_sns)
-all_tspan = (0.0, 100.0)
-all_params = to_init.(all_tns)
-
-mapping = Dict([
-    "I" => "cases",
-    "H" => "hosp",
-    "D" => "deaths"
-])
-
-jd = (;)
-sirhd_j = generate_json_acset(sirhd)
-ensemble_nt = (; models=[(; petri=sirhd_j, params=Dict(all_params[4]), initials=Dict(all_inits[4]), tspan=all_tspan, mapping=mapping)], data=namedtuple(JSON3.read(jdata)))
-ensemble_json = JSON3.write(ensemble_nt)
-write(_log("ensemble.json"), ensemble_json)
-b = JSON3.read(read(_log("ensemble.json")))
-models = b.models
-m = b.models[1]
-data = b.data
-mp = collect(Dict(m.mapping))
-map_to_data(mp, d) = string.(first.(mp)) .=> map(x -> Float64.(collect(d[Symbol(x)])), last.(mp))
-# build_cali_nt
-mpn = JSON3.write(m.petri)
-
-# write_json_acset("sirhd.json", m.petri)
-parse_json_acset(TAny, mpn)
-function ensemble_calibrate(; models, data)
-    # m = models[1]
-    fits = []
-    for m in models
-        data_ = map_to_data(mp, data)
-        
-        params_ = collect(m.params)
-        paramsd = Dict(string.(first.(params_)) .=> last.(params_))
-
-        initials_ = collect(m.initials)
-        initialsd = Dict(string.(first.(initials_)) .=> last.(initials_))
-        t = data.t
-        nt = (; model=parse_json_acset(TAny, mpn), params=paramsd, initials=initialsd, t=Float64.(collect(t)), data=Dict(data_))
-        push!(fits, SimulationService.SciMLInterface.calibrate(; nt...))
-    end
-    fits
-end
\ No newline at end of file
diff --git a/test/runtests.jl b/test/runtests.jl
index 9afcca1..a0ca2d6 100644
--- a/test/runtests.jl
+++ b/test/runtests.jl
@@ -1,27 +1,81 @@
 using Test
-using Downloads: download
+using DataFrames
+using EasyConfig
 using HTTP
 using JSON3
+using Oxygen
+using SciMLBase: solve
+
 using SimulationService
-# using SafeTestsets
 
+SimulationService.SIMSERVICE_ENABLE_TDS = false
 
 #-----------------------------------------------------------------------------# Operations
 @testset "Operations" begin
     @testset "simulate" begin
         url = "https://raw.githubusercontent.com/DARPA-ASKEM/Model-Representations/main/petrinet/examples/sir.json"
-        json_string = read(download(url), String)
-        model = SimulationService.Service.Execution.Interface.Available.ProblemInputs.coerce_model(json_string)
-        f = SimulationService.Service.Execution.Interface.Available.get_operation(:simulate)
-        f(; model, context=nothing)
+        obj = SimulationService.get_json(url)
+        sys = SimulationService.ode_system_from_amr(obj)
+        op = SimulationService.Simulate(sys, (0.0, 100.0))
+        df = solve(op)
+        @test df isa DataFrame
+        @test extrema(df.timestamp) == (0.0, 100.0)
     end
+
     @testset "calibrate" begin
         # TODO
     end
+
     @testset "ensemble" begin
         # TODO
     end
 end
 
+#-----------------------------------------------------------------------------# test routes
+@testset "Server Routes" begin
+    SimulationService.SIMSERVICE_ENABLE_TDS = false
+    start!()
+
+    url = SimulationService.server_url[]
+
+    sleep(1) # wait for server to start
+
+    @testset "/" begin
+        res = HTTP.get(url)
+        @test res.status == 200
+        @test JSON3.read(res.body).status == "ok"
+    end
+
+    @testset "/simulate" begin
+        file = joinpath(@__DIR__, "..", "examples", "BIOMD0000000955_askenet.json")
+        amr = JSON3.read(read(file), Config)
+        json = Config(test_amr = amr, timespan=(0, 90))
+        body = JSON3.write(json)
+        res = HTTP.post("$url/simulate", ["Content-Type" => "application/json"]; body=body)
+        @test res.status == 201
 
-# @safetestset "sciml" begin include("sciml.jl") end
+        done_or_failed = false
+        job_id = JSON3.read(res.body).simulation_id
+        while !done_or_failed
+            status = JSON3.read(HTTP.get("$url/status/$job_id").body)
+            if status.status == "complete"
+                @test true
+                done_or_failed = true
+            elseif status.status == "error"
+                @test false
+                done_or_failed = true
+            end
+            sleep(1)
+        end
+    end
+
+    @testset "/calibrate" begin
+        @test true # TODO
+    end
+
+    @testset "/ensemble" begin
+        @test true # TODO
+    end
+
+    stop!()
+end
diff --git a/test/sciml.jl b/test/sciml.jl
deleted file mode 100644
index 6a67aa9..0000000
--- a/test/sciml.jl
+++ /dev/null
@@ -1,58 +0,0 @@
-using SimulationService, AlgebraicPetri, DataFrames, DifferentialEquations, ModelingToolkit, Symbolics, EasyModelAnalysis, Catlab, Catlab.CategoricalAlgebra, JSON3, UnPack, SimulationService.Service.Execution.Interface.Operations
-using CSV, DataFrames, JSONTables
-using ForwardDiff
-
-_datadir() = joinpath(@__DIR__, "../examples")
-_data(s) = joinpath(_datadir(), s)
-
-_logdir() = joinpath(@__DIR__, "logs")
-_log(s) = joinpath(_logdir(), s)
-mkpath(_logdir())
-
-bn = "BIOMD0000000955_miranet.json"
-fn = _data(bn)
-T = PropertyLabelledReactionNet{Number,Number,Dict}
-TAny = PropertyLabelledReactionNet{Any,Any,Any}
-
-# we should be able to assume that all concentration and rate are set (despite this not being the case for the other 2 Miras from ben)
-petri = read_json_acset(T, fn)
-ps = string.(tnames(petri)) .=> petri[:rate]
-u0 = string.(snames(petri)) .=> petri[:concentration]
-
-params = Dict(ps)
-initials = Dict(u0)
-timespan = (0.0, 100.0)
-
-nt = (; model=petri, params, initials, timespan)
-body = Dict(pairs(nt))
-j = JSON3.write(body)
-forecast_fn = _log("forecast.json")
-write(forecast_fn, j)
-
-df = SimulationService.Service.Execution.Interface.Available.get_operation(:simulate)(; nt..., context=nothing)
-@test df isa DataFrame
-
-params["t1"] = 0.1
-nt = (; model = petri, params, initials, timespan)
-df2 = SimulationService.Service.Execution.Interface.Available.get_operation(:simulate)(; nt..., context=nothing)
-
-timesteps = df.timestamp
-data = Dict(["Susceptible" => df[:, 2]])
-rename!(df, Dict("Susceptible(t)" => "Susceptible", "timestamp" => "timestep"))
-fit_args = (; model=petri, params, initials, dataset=df[:, ["timestep", "Susceptible"]])
-fit_body = Dict(pairs(fit_args))
-fit_j = JSON3.write(fit_body)
-calibrate_fn = _log("calibrate.json")
-write(calibrate_fn, fit_j)
-
-fitp = SimulationService.Service.Execution.Interface.Available.get_operation(:calibrate)(; fit_args..., context=nothing)
-prob = SimulationService.Service.Execution.Interface.Operations.Utils.to_prob(petri, params, initials, extrema(timesteps))
-sys = prob.f.sys
-
-# example of dloss/dp
-pkeys = parameters(sys)
-pvals = [params[string(x)] for x in pkeys]
-data = [states(sys)[1] => df[:, 2]]
-
-l = EasyModelAnalysis.l2loss(pvals, (prob, pkeys, timesteps, data))
-ForwardDiff.gradient(p -> EasyModelAnalysis.l2loss(p, (prob, pkeys, timesteps, data)), last.(fitp))