Resolve "for some translocations the reactant and product are the same species in CellDesigner or SBML exports"

Closes #2169 (closed)

web/src/test/java/lcsb/mapviewer/web/api/NewApiDocs.java

@@ -149,7 +149,7 @@ public class NewApiDocs {
             .optional()
             .type(JsonFieldType.NUMBER),
         fieldWithPath(prefix + "color")
-            .description("color that shoyld be used when drawing overlay entry")
+            .description("color that should be used when drawing overlay entry")
             .optional()
             .type(JsonFieldType.OBJECT),
         fieldWithPath(prefix + "description")
@@ -163,8 +163,7 @@ public class NewApiDocs {
   }
 
   private List<FieldDescriptor> getReactionCsvFields() {
-    final List<FieldDescriptor> result = new ArrayList<>();
-    result.addAll(Arrays.asList(
+    return new ArrayList<>(Arrays.asList(
         fieldWithPath("elementTypes")
             .description("list of element types")
             .type(JsonFieldType.ARRAY),
@@ -186,12 +185,10 @@ public class NewApiDocs {
         fieldWithPath("excludedCompartmentIds")
             .description("list of compartment identifiers where all participant should not be present")
             .type(JsonFieldType.ARRAY)));
-    return result;
   }
 
   private List<FieldDescriptor> getElementCsvFields() {
-    final List<FieldDescriptor> result = new ArrayList<>();
-    result.addAll(Arrays.asList(
+    return new ArrayList<>(Arrays.asList(
         fieldWithPath("types")
             .description("list of element types")
             .type(JsonFieldType.ARRAY),
@@ -210,7 +207,6 @@ public class NewApiDocs {
         fieldWithPath("excludedCompartmentIds")
             .description("list of compartment identifiers from which elements should be excluded")
             .type(JsonFieldType.ARRAY)));
-    return result;
   }
 
   private List<FieldDescriptor> getBioEntityFields(final String prefix) {
@@ -310,8 +306,7 @@ public class NewApiDocs {
   }
 
   private List<FieldDescriptor> getSpeciesSpecificFields(final String prefix) {
-    final List<FieldDescriptor> result = new ArrayList<>();
-    result.addAll(Arrays.asList(
+    final List<FieldDescriptor> result = new ArrayList<>(Arrays.asList(
         fieldWithPath(prefix + "nameX")
             .description("x coordinate of the element name on the map")
             .type(JsonFieldType.NUMBER)
@@ -452,6 +447,11 @@ public class NewApiDocs {
             .type(JsonFieldType.NUMBER)
             .optional(),
 
+        fieldWithPath(prefix + "pathway")
+            .description("identifier of a pathway in which element is located")
+            .type(JsonFieldType.NUMBER)
+            .optional(),
+
         fieldWithPath(prefix + "compartmentName")
             .description("name of a compartment in which element is located")
             .type(JsonFieldType.STRING)
@@ -549,7 +549,7 @@ public class NewApiDocs {
     final List<FieldDescriptor> result = new ArrayList<>();
     result.addAll(Arrays.asList(
         fieldWithPath(prefix + "idReaction")
-            .description("resction identifier taken from source file")
+            .description("reaction identifier taken from source file")
             .type(JsonFieldType.STRING)
             .optional(),
         fieldWithPath(prefix + "reversible")