Module syntax corrections: removed superfluous names and empty target…

…_encounters.
synthetichealth · May 10, 2024 · 93a06f6 · 93a06f6
1 parent 9e86bcf
commit 93a06f6
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Showing 26 changed files with 5,551 additions and 6,155 deletions.
diff --git a/src/main/resources/modules/appendicitis.json b/src/main/resources/modules/appendicitis.json
@@ -21,8 +21,7 @@
         {
           "transition": "Terminal"
         }
-      ],
-      "name": "Initial"
+      ]
     },
     "Male": {
       "type": "Simple",
@@ -38,8 +37,7 @@
       ],
       "remarks": [
         "Men have an approx lifetime risk of appendicitis of 8.6%. Ref: http://www.ncbi.nlm.nih.gov/pubmed/2239906"
-      ],
-      "name": "Male"
+      ]
     },
     "Female": {
       "type": "Simple",
@@ -55,8 +53,7 @@
       ],
       "remarks": [
         "Women have an approx lifetime risk of appendicitis of 6.7%. Ref: http://www.ncbi.nlm.nih.gov/pubmed/2239906"
-      ],
-      "name": "Female"
+      ]
     },
     "Pre_appendicitis": {
       "type": "Simple",
@@ -80,8 +77,7 @@
       ],
       "remarks": [
         "Age distribution of appendicitis from https://www.ncbi.nlm.nih.gov/books/NBK169006/ , Table 1"
-      ],
-      "name": "Pre_appendicitis"
+      ]
     },
     "Ages_1_17": {
       "type": "Delay",
@@ -90,8 +86,7 @@
         "high": 17,
         "unit": "years"
       },
-      "direct_transition": "Appendicitis_Symptom1",
-      "name": "Ages_1_17"
+      "direct_transition": "Appendicitis_Symptom1"
     },
     "Ages_18_44": {
       "type": "Delay",
@@ -100,8 +95,7 @@
         "high": 44,
         "unit": "years"
       },
-      "direct_transition": "Appendicitis_Symptom1",
-      "name": "Ages_18_44"
+      "direct_transition": "Appendicitis_Symptom1"
     },
     "Ages_45_64": {
       "type": "Delay",
@@ -110,8 +104,7 @@
         "high": 64,
         "unit": "years"
       },
-      "direct_transition": "Appendicitis_Symptom1",
-      "name": "Ages_45_64"
+      "direct_transition": "Appendicitis_Symptom1"
     },
     "Ages_65_Plus": {
       "type": "Delay",
@@ -120,8 +113,7 @@
         "high": 99,
         "unit": "years"
       },
-      "direct_transition": "Appendicitis_Symptom1",
-      "name": "Ages_65_Plus"
+      "direct_transition": "Appendicitis_Symptom1"
     },
     "Appendicitis_Symptom1": {
       "type": "Symptom",
@@ -130,8 +122,7 @@
         "low": 50,
         "high": 150
       },
-      "direct_transition": "Appendicitis_Symptom2",
-      "name": "Appendicitis_Symptom1"
+      "direct_transition": "Appendicitis_Symptom2"
     },
     "Appendicitis_Symptom2": {
       "type": "Symptom",
@@ -140,8 +131,7 @@
         "low": 50,
         "high": 100
       },
-      "direct_transition": "Appendicitis_Symptom3",
-      "name": "Appendicitis_Symptom2"
+      "direct_transition": "Appendicitis_Symptom3"
     },
     "Appendicitis_Symptom3": {
       "type": "Symptom",
@@ -150,8 +140,7 @@
         "low": 50,
         "high": 100
       },
-      "direct_transition": "Appendicitis_Symptom4",
-      "name": "Appendicitis_Symptom3"
+      "direct_transition": "Appendicitis_Symptom4"
     },
     "Appendicitis_Symptom4": {
       "type": "Symptom",
@@ -160,8 +149,7 @@
         "low": 0,
         "high": 50
       },
-      "direct_transition": "Appendicitis_Symptom5",
-      "name": "Appendicitis_Symptom4"
+      "direct_transition": "Appendicitis_Symptom5"
     },
     "Appendicitis_Symptom5": {
       "type": "Symptom",
@@ -170,8 +158,7 @@
         "low": 0,
         "high": 50
       },
-      "direct_transition": "Appendicitis_Symptom6",
-      "name": "Appendicitis_Symptom5"
+      "direct_transition": "Appendicitis_Symptom6"
     },
     "Appendicitis_Symptom6": {
       "type": "Symptom",
@@ -180,8 +167,7 @@
         "low": 0,
         "high": 50
       },
-      "direct_transition": "Appendicitis_Symptom7",
-      "name": "Appendicitis_Symptom6"
+      "direct_transition": "Appendicitis_Symptom7"
     },
     "Appendicitis_Symptom7": {
       "type": "Symptom",
@@ -190,8 +176,7 @@
         "low": 0,
         "high": 50
       },
-      "direct_transition": "Symptom_Period",
-      "name": "Appendicitis_Symptom7"
+      "direct_transition": "Symptom_Period"
     },
     "Symptom_Period": {
       "type": "Delay",
@@ -200,8 +185,7 @@
         "high": 3,
         "unit": "days"
       },
-      "direct_transition": "Appendicitis",
-      "name": "Symptom_Period"
+      "direct_transition": "Appendicitis"
     },
     "Appendicitis": {
       "type": "ConditionOnset",
@@ -229,8 +213,7 @@
         "(ref: http://emedicine.medscape.com/article/773895-overview#a7 )",
         "From table 1 here: https://www.ncbi.nlm.nih.gov/books/NBK169006/ it's about 30%",
         "For simplicity here I just round to 30% for all age groups."
-      ],
-      "name": "Appendicitis"
+      ]
     },
     "Rupture": {
       "type": "ConditionOnset",
@@ -242,8 +225,7 @@
           "display": "Rupture of appendix"
         }
       ],
-      "direct_transition": "Appendicitis_Encounter",
-      "name": "Rupture"
+      "direct_transition": "Appendicitis_Encounter"
     },
     "Appendicitis_Encounter": {
       "type": "Encounter",
@@ -260,8 +242,7 @@
           "display": "Emergency room admission (procedure)"
         }
       ],
-      "direct_transition": "History_of_Appendectomy",
-      "name": "Appendicitis_Encounter"
+      "direct_transition": "History_of_Appendectomy"
     },
     "History_of_Appendectomy": {
       "type": "ConditionOnset",
@@ -273,8 +254,7 @@
           "display": "History of appendectomy"
         }
       ],
-      "direct_transition": "Transfer_To_Inpatient",
-      "name": "History_of_Appendectomy"
+      "direct_transition": "Transfer_To_Inpatient"
     },
     "Appendectomy_Encounter": {
       "type": "Encounter",
@@ -287,8 +267,7 @@
           "display": "Encounter for problem (procedure)"
         }
       ],
-      "direct_transition": "Appendectomy",
-      "name": "Appendectomy_Encounter"
+      "direct_transition": "Appendectomy"
     },
     "Appendectomy": {
       "type": "Procedure",
@@ -317,62 +296,55 @@
       "exact": {
         "quantity": 0
       },
-      "direct_transition": "Appendicitis_Symptom2_Ends",
-      "name": "Appendicitis_Symptom1_Ends"
+      "direct_transition": "Appendicitis_Symptom2_Ends"
     },
     "Appendicitis_Symptom2_Ends": {
       "type": "Symptom",
       "symptom": "Fever",
       "exact": {
         "quantity": 0
       },
-      "direct_transition": "Appendicitis_Symptom3_Ends",
-      "name": "Appendicitis_Symptom2_Ends"
+      "direct_transition": "Appendicitis_Symptom3_Ends"
     },
     "Appendicitis_Symptom3_Ends": {
       "type": "Symptom",
       "symptom": "Loss of Appetite",
       "exact": {
         "quantity": 0
       },
-      "direct_transition": "Appendicitis_Symptom4_Ends",
-      "name": "Appendicitis_Symptom3_Ends"
+      "direct_transition": "Appendicitis_Symptom4_Ends"
     },
     "Appendicitis_Symptom4_Ends": {
       "type": "Symptom",
       "symptom": "Nausea/Vomiting",
       "exact": {
         "quantity": 0
       },
-      "direct_transition": "Appendicitis_Symptom5_Ends",
-      "name": "Appendicitis_Symptom4_Ends"
+      "direct_transition": "Appendicitis_Symptom5_Ends"
     },
     "Appendicitis_Symptom5_Ends": {
       "type": "Symptom",
       "symptom": "Diarrhea",
       "exact": {
         "quantity": 0
       },
-      "direct_transition": "Appendicitis_Symptom6_Ends",
-      "name": "Appendicitis_Symptom5_Ends"
+      "direct_transition": "Appendicitis_Symptom6_Ends"
     },
     "Appendicitis_Symptom6_Ends": {
       "type": "Symptom",
       "symptom": "Bloating/Gas",
       "exact": {
         "quantity": 0
       },
-      "direct_transition": "Appendicitis_Symptom7_Ends",
-      "name": "Appendicitis_Symptom6_Ends"
+      "direct_transition": "Appendicitis_Symptom7_Ends"
     },
     "Appendicitis_Symptom7_Ends": {
       "type": "Symptom",
       "symptom": "Constipation",
       "exact": {
         "quantity": 0
       },
-      "direct_transition": "Recovery",
-      "name": "Appendicitis_Symptom7_Ends"
+      "direct_transition": "Recovery"
     },
     "Recovery": {
       "type": "Delay",
@@ -387,8 +359,7 @@
         "Forty-two patients were dismissed on the day of surgery and 77 were admitted for 1 to 5 days postoperatively.",
         "https://www.ncbi.nlm.nih.gov/pubmed/22369831"
       ],
-      "direct_transition": "End_Appendectomy_Encounter",
-      "name": "Recovery"
+      "direct_transition": "End_Appendectomy_Encounter"
     },
     "End_Appendectomy_Encounter": {
       "type": "EncounterEnd",
@@ -397,12 +368,10 @@
         "code": "01",
         "display": "Discharged to home care or self care (routine discharge)"
       },
-      "direct_transition": "Terminal",
-      "name": "End_Appendectomy_Encounter"
+      "direct_transition": "Terminal"
     },
     "Terminal": {
-      "type": "Terminal",
-      "name": "Terminal"
+      "type": "Terminal"
     },
     "Transfer_To_Inpatient": {
       "type": "EncounterEnd",

diff --git a/src/main/resources/modules/covid19.json b/src/main/resources/modules/covid19.json
@@ -10,12 +10,10 @@
   "states": {
     "Initial": {
       "type": "Initial",
-      "direct_transition": "Wait Until Exposure",
-      "name": "Initial"
+      "direct_transition": "Wait Until Exposure"
     },
     "Terminal": {
-      "type": "Terminal",
-      "name": "Terminal"
+      "type": "Terminal"
     },
     "Wait Until Exposure": {
       "type": "Delay",
@@ -24,33 +22,30 @@
         "unit": "days"
       },
       "lookup_table_transition": [
-          {
-            "transition": "Wait Until Exposure",
-            "default_probability": 1,
-            "lookup_table_name": "covid19_prob.csv"
-          },
-          {
-            "transition": "Check Vaccine Status",
-            "default_probability": 0,
-            "lookup_table_name": "covid19_prob.csv"
-          },
-          {
-            "transition": "Terminal",
-            "default_probability": 0,
-            "lookup_table_name": "covid19_prob.csv"
-          }
-      ],
-      "name": "Wait Until Exposure"
+        {
+          "transition": "Wait Until Exposure",
+          "default_probability": 1,
+          "lookup_table_name": "covid19_prob.csv"
+        },
+        {
+          "transition": "Check Vaccine Status",
+          "default_probability": 0,
+          "lookup_table_name": "covid19_prob.csv"
+        },
+        {
+          "transition": "Terminal",
+          "default_probability": 0,
+          "lookup_table_name": "covid19_prob.csv"
+        }
+      ]
     },
     "Call Infection Submodule": {
       "submodule": "covid19/infection",
       "type": "CallSubmodule",
-      "direct_transition": "Terminal",
-      "name": "Call Infection Submodule"
+      "direct_transition": "Terminal"
     },
     "Check Vaccine Status": {
       "type": "Simple",
-      "name": "Check Vaccine Status",
       "complex_transition": [
         {
           "condition": {

diff --git a/src/main/resources/modules/homelessness.json b/src/main/resources/modules/homelessness.json
@@ -429,7 +429,6 @@
     },
     "Homeless_Condition": {
       "type": "ConditionOnset",
-      "target_encounter": "",
       "codes": [
         {
           "system": "SNOMED-CT",