Update model-configuration-extracting-variables.md (#5711)

DARPA-ASKEM · Dec 3, 2024 · 7c17247 · 7c17247
1 parent 7b2dd23
commit 7c17247
Showing 1 changed file with 73 additions and 10 deletions.
diff --git a/testing/manual/model-configuration-extracting-variables.md b/testing/manual/model-configuration-extracting-variables.md
@@ -12,16 +12,18 @@ Report any issues into GitHub: [open an issue](https://github.com/DARPA-ASKEM/te
 
 ### 2. Upload assets
 1. From the manual testing [data folder](https://drive.google.com/drive/folders/14z6WAldQky0xgOAM69f6hakXhyHobYMe), add these resources to your project by clicking the `Upload` button and dragging these downloaded files onto the popup:
-    a. [SIR Document 1](https://drive.google.com/file/d/1ZQXSGhesif_G0bjQiB9nx0B_BJ1xV1Wx/view?usp=sharing)
-    b. [SIR Document 2](https://drive.google.com/file/d/1U1h5YCBxom9k475QSOzkiIwyi5V159dV/view?usp=sharing)
-    c. [SIR Model](https://drive.google.com/file/d/1F9UWuvwJPZY_XAGflsOIYy4Qrl56KS91/view?usp=sharing)
-    d. [Stratified SIR model](https://drive.google.com/file/d/1r-zfKmHrOub7QT9BfdQEZabfZqveLhIq/view?usp=sharing)
-    e. [SIDARTHE model](https://drive.google.com/drive/folders/14z6WAldQky0xgOAM69f6hakXhyHobYMe)
-    f. [SIDARTHE paper](https://drive.google.com/file/d/1pOb1MuarNEyrDf6I6z96Pdf_hQ9Q3_v0/view?usp=drive_link)
-    g. [SIR timeseries Dataset 1](https://drive.google.com/file/d/1QM2TL6XrBHIlFOVSavugKAQErls7XtY8/view?usp=sharing)
-    h. [SIR timeseries Dataset 2](https://drive.google.com/file/d/1zKySIpyPN_aa-icxy1e8NHmVtkZs51Fn/view?usp=sharing)
-    i. [SIR contact matrix dataset](https://drive.google.com/file/d/17TByirv-LwunB0gDq46-Ww-SyJZYaHKD/view?usp=sharing)
-2. Wait a minute or two for the Document Intelligence service to finish extracting artifacts from the uploaded document.
+    1. [SIR Document 1](https://drive.google.com/file/d/1ZQXSGhesif_G0bjQiB9nx0B_BJ1xV1Wx/view?usp=sharing)
+    2. [SIR Document 2](https://drive.google.com/file/d/1U1h5YCBxom9k475QSOzkiIwyi5V159dV/view?usp=sharing)
+    3. [SIR Model](https://drive.google.com/file/d/1F9UWuvwJPZY_XAGflsOIYy4Qrl56KS91/view?usp=sharing)
+    4. [Stratified SIR model](https://drive.google.com/file/d/1r-zfKmHrOub7QT9BfdQEZabfZqveLhIq/view?usp=sharing)
+    5. [SIDARTHE model](https://drive.google.com/drive/folders/14z6WAldQky0xgOAM69f6hakXhyHobYMe)
+    6. [SIDARTHE paper](https://drive.google.com/file/d/1pOb1MuarNEyrDf6I6z96Pdf_hQ9Q3_v0/view?usp=drive_link)
+    7. [SIR timeseries Dataset 1](https://drive.google.com/file/d/1QM2TL6XrBHIlFOVSavugKAQErls7XtY8/view?usp=sharing)
+    8. [SIR timeseries Dataset 2](https://drive.google.com/file/d/1zKySIpyPN_aa-icxy1e8NHmVtkZs51Fn/view?usp=sharing)
+    9. [SIR contact matrix dataset](https://drive.google.com/file/d/17TByirv-LwunB0gDq46-Ww-SyJZYaHKD/view?usp=sharing)
+    10. [Prob 5 Model C](https://drive.google.com/file/d/1CF-n8OUroRaaNCaRTwvOgrPuASrktj1P/view?usp=drive_link)
+    11. [Rosenblatt 2024](https://drive.google.com/file/d/1mGU2HwXG5ZWjgo24DNaNkq2oS5ipL6_V/view?usp=drive_link)
+3. Wait a minute or two for the Document Intelligence service to finish extracting artifacts from the uploaded document.
 
 ### 3. Extracting configurations from multiple documents and timeseries datasets
 1. Create a new workflow
@@ -85,3 +87,64 @@ Report any issues into GitHub: [open an issue](https://github.com/DARPA-ASKEM/te
         - `Restrictive NPIs Scenario`
     - Initial expressions for S, I, D, A, R, T, H, and E should be extracted for all configurations
     - Parameter values for alpha, beta, delta, epsilon, eta, gamma, kappa, lambda, mu, nu, rho, theta, xi, zeta, tau, and sigma should be extracted for all configurations
+
+### 6. Extracting configuration from a table with probability distributions (Not supported yet)
+
+This is difficult test case since it involves extracting values from a table _and_ some of the parameters are probability distributions.
+
+1. Add `Prob 5 Model C` model and `Rosenblatt 2024` document to the workflow
+2. Create a new "Configure model" operator
+3. Connect the model and document to this operator
+4. Open the operator and click "Extract configuration from inputs"
+5. There should be only one model configuration that is extracted
+6. Confirm the values
+
+   | Parameters | Type | Distribution Parameter(s) | 
+   | --- | --- | --- |
+   | α   | LogNormal1 | meanLog = 4.72, stdevLog  = 0.63 |
+   | AER | Constant | 4      |
+   | Aw  | Constant | 100    |
+   | Ci  | Constant | 0.0014 |
+   | Nw  | Constant | 1000   |
+   | S   | Constant | 0.24 | 
+   | Vair   | Constant | 7.03    |
+   | Vdrop  | Constant | 0.01    | 
+   | e      | Constant | 2.71828 | 
+   | kappa  | Constant | 11.35   |
+   | lambda | Constant | 0.63    |
+   | q      | Constant | 0.34    | 
+   | rhoA   | LogNormal1 | meanLog = 3.47, stdevLog = 0.23 |
+   | theta  | LogNormal1 | meanLog = 0.28, stdevLog = 0.27 |
+   | epsilonD | LogitNormal1 | location = -1.46, scale = 0.71 |
+   | k | Constant | 410    |
+   | y | Constant | 0.1666 |
+   | IR_W_W | Constant | 0.85 |
+   | IR_W_C | Constant | 0.85 |
+   | IR_W_H | Constant | 0.85 |
+   | IR_C_W | Constant | 0.85 |
+   | IR_C_C | Constant | 0.85 |
+   | IR_C_H | Constant | 0.85 |
+   | IR_H_W | Constant | 0.53 |
+   | IR_H_C | Constant | 0.53 |
+   | IR_H_H | Constant | 0.53 |
+   | omega_W_C | Constant | 0.00072 |
+   | omega_C_W | Constant | 0.00072 |
+   | omega_C_C | LogNormal1 | meanLog = 3.47,  stdevLog = 0.91 |
+   | omega_H_W | LogNormal1 | meanLog = -1.59, stdevLog = 1.70 |
+   | omega_W_H | LogNormal1 | meanLog = -1.59, stdevLog = 1.70 |
+   | omega_H_C | LogNormal1 | meanLog = 2.52,  stdevLog = 1.13 |
+   | omega_C_H | LogNormal1 | meanLog = 2.52,  stdevLog = 1.13 |
+   | tContact_W_W | LogNormal1 | meanLog = 1.55,   stdevLog = 1.27 |
+   | tContact_W_C | LogNormal1 | meanLog = 1.55,   stdevLog = 1.27 |
+   | tContact_C_W | LogNormal1 | meanLog = 1.55,   stdevLog = 1.27 |
+   | tContact_C_C | LogNormal1 | meanLog = 1.55,   stdevLog = 1.27 |
+   | tContact_C_H | LogNormal1 | meanLog = 1.79,   stdevLog = 1.15 |
+   | tContact_W_H | LogNormal1 | meanLog = -0.36,  stdevLog = 0.98 |
+   | Cvs    | LogNormal1 | meanLog = 0.22, stdevLog = 0.34 |
+   | Cv_C_C | LogNormal1 | meanLog = 0.22, stdevLog = 0.34 |
+   | Cv_C_W | LogNormal1 | meanLog = 0.22, stdevLog = 0.34 |
+   | Cv_W_C | LogNormal1 | meanLog = 0.22, stdevLog = 0.34 |
+   | Cv_C_H | LogNormal1 | meanLog = 5.6 * log(10),  stdevLog = 1.2 * log(10) |
+   
+   | Cv_W_H | LogNormal1 | meanLog = 5.6 * log(10),  stdevLog = 1.2 * log(10) |
+   | Vsputum | Constant | 100 |