type names normalized

web/src/test/java/lcsb/mapviewer/web/ChemicalControllerIntegrationTest.java

@@ -90,7 +90,7 @@ public class ChemicalControllerIntegrationTest extends ControllerIntegrationTest
             responseFields(
                 fieldWithPath("[]")
                     .description("list of suggested chemical queries")
-                    .type("Array<String>"))))
+                    .type("array<string>"))))
         .andExpect(status().is2xxSuccessful())
         .andReturn().getResponse().getContentAsString();
 
@@ -106,7 +106,7 @@ public class ChemicalControllerIntegrationTest extends ControllerIntegrationTest
     return responseFields(
         subsectionWithPath("[].id")
             .description("identifier of the chemical")
-            .type("Object"),
+            .type("object"),
         fieldWithPath("[].name")
             .description("name")
             .type("string"),
@@ -115,31 +115,31 @@ public class ChemicalControllerIntegrationTest extends ControllerIntegrationTest
             .type("string"),
         fieldWithPath("[].synonyms")
             .description("list of synonyms")
-            .type("Array<String>"),
+            .type("array<string>"),
         subsectionWithPath("[].references")
             .description("list of references")
-            .type("Array<Reference>"),
+            .type("array<Reference>"),
         fieldWithPath("[].targets")
             .description("list of targets")
-            .type("Array<Target>"),
+            .type("array<Target>"),
         fieldWithPath("[].targets[].name")
             .description("target name")
             .type("string"),
         subsectionWithPath("[].targets[].references")
             .description("list of target references")
-            .type("Array<Reference>"),
+            .type("array<Reference>"),
         subsectionWithPath("[].targets[].targetElements")
             .description("list of elements on the map associated with this target")
-            .type("Array<Object>"),
+            .type("array<object>"),
         subsectionWithPath("[].targets[].targetParticipants")
             .description("list of identifiers associated with this target")
-            .type("Array<Object>"),
+            .type("array<object>"),
         fieldWithPath("[].directEvidence")
             .description("direct evidence")
             .type("string"),
         subsectionWithPath("[].directEvidenceReferences")
             .description("list of references")
-            .type("Array<Reference>"));
+            .type("array<Reference>"));
   }
 
   @Test

web/src/test/java/lcsb/mapviewer/web/CommentControllerIntegrationTest.java

@@ -121,7 +121,7 @@ public class CommentControllerIntegrationTest extends ControllerIntegrationTest
     return responseFields(
         subsectionWithPath("[]")
             .description("list of comments")
-            .type("Array<Comment>")).andWithPrefix("[].", getCommentResponseFields());
+            .type("array<Comment>")).andWithPrefix("[].", getCommentResponseFields());
   }
 
   private List<FieldDescriptor> getCommentResponseFields() {
@@ -129,23 +129,23 @@ public class CommentControllerIntegrationTest extends ControllerIntegrationTest
         fieldWithPath("author")
             .description("author name")
             .optional()
-            .type("String"),
+            .type("string"),
         fieldWithPath("owner")
             .description("login of the user that created a comment")
             .optional()
-            .type("String"),
+            .type("string"),
         fieldWithPath("email")
             .description("author email address")
             .optional()
-            .type("String"),
+            .type("string"),
         fieldWithPath("content")
             .description("content")
             .optional()
-            .type("String"),
+            .type("string"),
         fieldWithPath("title")
             .description("formatted name of the commented element")
             .optional()
-            .type("String"),
+            .type("string"),
         fieldWithPath("pinned")
             .description("should the comment be visible to everybody on the map")
             .optional()
@@ -158,7 +158,7 @@ public class CommentControllerIntegrationTest extends ControllerIntegrationTest
         fieldWithPath("removeReason")
             .description("reason why comment was removed")
             .optional()
-            .type("String"),
+            .type("string"),
         fieldWithPath("id")
             .description("comment identifier")
             .optional()
@@ -170,11 +170,11 @@ public class CommentControllerIntegrationTest extends ControllerIntegrationTest
         subsectionWithPath("coord")
             .description("coordinates where comment should be pinned")
             .optional()
-            .type("Point"),
+            .type("point"),
         fieldWithPath("icon")
             .description("icon that should be used to visualize this comment")
             .optional()
-            .type("String"),
+            .type("string"),
         fieldWithPath("elementId")
             .description("element identifier")
             .optional()
@@ -183,7 +183,7 @@ public class CommentControllerIntegrationTest extends ControllerIntegrationTest
             .description("type of the element that was commented on. Available options "
                 + snippets.getOptionsAsString(ElementIdentifierType.class))
             .optional()
-            .type("String"));
+            .type("string"));
   }
 
   private RequestParametersSnippet getCommentsRequestParameters() {

web/src/test/java/lcsb/mapviewer/web/ConfigurationControllerIntegrationTest.java

@@ -96,7 +96,7 @@ public class ConfigurationControllerIntegrationTest extends ControllerIntegratio
         .andDo(document("configuration/list_options",
             responseFields(subsectionWithPath("[]")
                 .description("list of options")
-                .type("Array<Option>")).andWithPrefix("[].", configurationOptionFields())))
+                .type("array<Option>")).andWithPrefix("[].", configurationOptionFields())))
 
         .andReturn().getResponse().getContentAsString();
 
@@ -192,7 +192,7 @@ public class ConfigurationControllerIntegrationTest extends ControllerIntegratio
             responseFields(
                 fieldWithPath("[]")
                     .description("list of available databases")
-                    .type("Array"),
+                    .type("array"),
                 fieldWithPath("[].name")
                     .description("name of the database")
                     .type("string"))))
@@ -210,7 +210,7 @@ public class ConfigurationControllerIntegrationTest extends ControllerIntegratio
             responseFields(
                 fieldWithPath("[]")
                     .description("list of available releases")
-                    .type("Array"),
+                    .type("array"),
                 fieldWithPath("[].licenseUrl")
                     .description("url with the content of license used for this release")
                     .type("string"),
@@ -342,7 +342,7 @@ public class ConfigurationControllerIntegrationTest extends ControllerIntegratio
             .type("string"),
         fieldWithPath("elementClassNames")
             .description("Java classes that identify bioEntity types that can be annotated by the annotator")
-            .type("List<String>"),
+            .type("array<string>"),
         fieldWithPath("description")
             .description("short description of the annotator")
             .type("string")
@@ -350,7 +350,7 @@ public class ConfigurationControllerIntegrationTest extends ControllerIntegratio
         fieldWithPath("parameters")
             .description(
                 "list of supported input fields, generated outputs that can be filled by annotator and configuration options")
-            .type("List<Object>")));
+            .type("array<object>")));
     result.addAll(annotatorParameterFields("parameters[]."));
 
     return result;
@@ -438,7 +438,7 @@ public class ConfigurationControllerIntegrationTest extends ControllerIntegratio
             .optional(),
         fieldWithPath("registryIdentifier")
             .description("list of uris used by this identifier type")
-            .type("Array<String>")
+            .type("array<string>")
             .optional()));
   }
 
@@ -535,34 +535,34 @@ public class ConfigurationControllerIntegrationTest extends ControllerIntegratio
             .optional(),
         fieldWithPath(prefix + "field")
             .description("bioEntity field. Either this or 'annotation_type' is required for INPUT/OUTPUT parameter")
-            .type("String")
+            .type("string")
             .optional(),
         fieldWithPath(prefix + "commonName")
             .description("name of the CONFIG parameter")
-            .type("String")
+            .type("string")
             .optional(),
         fieldWithPath(prefix + "description")
             .description("description of the parameter")
-            .type("String")
+            .type("string")
             .optional(),
         fieldWithPath(prefix + "inputType")
             .description("type of the CONFIG parameter")
-            .type("String")
+            .type("string")
             .optional(),
         fieldWithPath(prefix + "name")
             .description("name of the CONFIG parameter")
-            .type("String")
+            .type("string")
             .optional(),
         fieldWithPath(prefix + "value")
             .description("default value of the CONFIG parameter")
-            .type("String")
+            .type("string")
             .optional(),
         fieldWithPath(prefix + "order")
             .description("order position when listing parameters")
             .type("number"),
         fieldWithPath(prefix + "type")
             .description("type of parameter (INPUT/OUTPUT/CONFIG)")
-            .type("String"));
+            .type("string"));
     return result;
   }
 

web/src/test/java/lcsb/mapviewer/web/ConvertControllerIntegrationTest.java

@@ -130,16 +130,16 @@ public class ConvertControllerIntegrationTest extends ControllerIntegrationTest
             responseFields(
                 fieldWithPath("inputs")
                     .description("list of available input formats")
-                    .type("Array"),
+                    .type("array"),
                 fieldWithPath("inputs[].available_names")
                     .description("list of names that could be used for specific format")
-                    .type("Array<String>"),
+                    .type("array<string>"),
                 fieldWithPath("outputs")
                     .description("list of available input formats")
-                    .type("Array"),
+                    .type("array"),
                 fieldWithPath("outputs[].available_names")
                     .description("list of names that could be used for specific format")
-                    .type("Array<String>"))));
+                    .type("array<string>"))));
   }
 
   @Test
@@ -171,16 +171,16 @@ public class ConvertControllerIntegrationTest extends ControllerIntegrationTest
             responseFields(
                 fieldWithPath("inputs")
                     .description("list of available input formats")
-                    .type("Array"),
+                    .type("array"),
                 fieldWithPath("inputs[].available_names")
                     .description("list of names that could be used for specific format")
-                    .type("Array<String>"),
+                    .type("array<string>"),
                 fieldWithPath("outputs")
                     .description("list of available input formats")
-                    .type("Array"),
+                    .type("array"),
                 fieldWithPath("outputs[].available_names")
                     .description("list of names that could be used for specific format")
-                    .type("Array<String>"))));
+                    .type("array<string>"))));
   }
 
   @Test

web/src/test/java/lcsb/mapviewer/web/DrugControllerIntegrationTest.java

@@ -106,7 +106,7 @@ public class DrugControllerIntegrationTest extends ControllerIntegrationTest {
             responseFields(
                 fieldWithPath("[]")
                     .description("list of suggested drug queries")
-                    .type("Array<String>"))))
+                    .type("array<string>"))))
         .andExpect(status().is2xxSuccessful());
   }
 
@@ -125,7 +125,7 @@ public class DrugControllerIntegrationTest extends ControllerIntegrationTest {
     return responseFields(
         subsectionWithPath("[].id")
             .description("identifier of the chemical")
-            .type("Object"),
+            .type("object"),
         fieldWithPath("[].name")
             .description("name")
             .type("string"),
@@ -134,31 +134,31 @@ public class DrugControllerIntegrationTest extends ControllerIntegrationTest {
             .type("string"),
         fieldWithPath("[].synonyms")
             .description("list of synonyms")
-            .type("Array<String>"),
+            .type("array<string>"),
         fieldWithPath("[].brandNames")
             .description("list of brand names")
-            .type("Array<String>"),
+            .type("array<string>"),
         fieldWithPath("[].bloodBrainBarrier")
             .description("does drug cross blood brain barrier")
-            .type("String"),
+            .type("string"),
         subsectionWithPath("[].references")
             .description("list of references")
-            .type("Array<Reference>"),
+            .type("array<Reference>"),
         fieldWithPath("[].targets")
             .description("list of targets")
-            .type("Array<Target>"),
+            .type("array<Target>"),
         fieldWithPath("[].targets[].name")
             .description("target name")
             .type("string"),
         subsectionWithPath("[].targets[].references")
             .description("list of target references")
-            .type("Array<Reference>"),
+            .type("array<Reference>"),
         subsectionWithPath("[].targets[].targetElements")
             .description("list of elements on the map associated with this target")
-            .type("Array<Object>"),
+            .type("array<object>"),
         subsectionWithPath("[].targets[].targetParticipants")
             .description("list of identifiers associated with this target")
-            .type("Array<Object>"));
+            .type("array<object>"));
   }
 
 }

web/src/test/java/lcsb/mapviewer/web/FileControllerIntegrationTest.java

@@ -142,19 +142,19 @@ public class FileControllerIntegrationTest extends ControllerIntegrationTest {
     return Arrays.asList(
         fieldWithPath("id")
             .description("unique id in the system")
-            .type("Number"),
+            .type("number"),
         fieldWithPath("filename")
             .description("original name of the file")
-            .type("Number"),
+            .type("number"),
         fieldWithPath("length")
             .description("file length")
-            .type("Number"),
+            .type("number"),
         fieldWithPath("owner")
             .description("login of the file owner")
-            .type("Number"),
+            .type("number"),
         fieldWithPath("uploadedDataLength")
             .description("total number of uploaded bytes")
-            .type("Number"));
+            .type("number"));
   }
 
 }

web/src/test/java/lcsb/mapviewer/web/FunctionControllerIntegrationTest.java

@@ -118,7 +118,7 @@ public class FunctionControllerIntegrationTest extends ControllerIntegrationTest
             .type("string"),
         fieldWithPath("arguments")
             .description("list of function parameters")
-            .type("Array<Object>"));
+            .type("array<object>"));
   }
 
   private ResponseFieldsSnippet listOfFunctionFields() {

web/src/test/java/lcsb/mapviewer/web/GenomicsControllerIntegrationTest.java

@@ -77,7 +77,7 @@ public class GenomicsControllerIntegrationTest extends ControllerIntegrationTest
         .andDo(document("genomics/get_organisms",
             responseFields(fieldWithPath("[]")
                 .description("list of organisms")
-                .type("Array")).andWithPrefix("[].", organismResponseFields())))
+                .type("array")).andWithPrefix("[].", organismResponseFields())))
         .andExpect(status().is2xxSuccessful())
         .andReturn().getResponse().getContentAsString();
 
@@ -92,7 +92,7 @@ public class GenomicsControllerIntegrationTest extends ControllerIntegrationTest
     return Arrays.asList(
         fieldWithPath("resource")
             .description("taxonomy id of the organism")
-            .type("String"),
+            .type("string"),
         fieldWithPath("annotatorClassName").ignored(),
         fieldWithPath("id").ignored(),
         fieldWithPath("link").ignored(),
@@ -110,10 +110,10 @@ public class GenomicsControllerIntegrationTest extends ControllerIntegrationTest
             responseFields(
                 fieldWithPath("[]")
                     .description("list of genome types")
-                    .type("Array"),
+                    .type("array"),
                 fieldWithPath("[].type")
                     .description("type")
-                    .type("String"))))
+                    .type("string"))))
         .andExpect(status().is2xxSuccessful());
   }
 
@@ -132,10 +132,10 @@ public class GenomicsControllerIntegrationTest extends ControllerIntegrationTest
             responseFields(
                 fieldWithPath("[]")
                     .description("list of genome versions")
-                    .type("Array"),
+                    .type("array"),
                 fieldWithPath("[].version")
                     .description("version")
-                    .type("String"))))
+                    .type("string"))))
         .andExpect(status().is2xxSuccessful());
   }
 
@@ -156,10 +156,10 @@ public class GenomicsControllerIntegrationTest extends ControllerIntegrationTest
             responseFields(
                 fieldWithPath("[]")
                     .description("list of urls")
-                    .type("Array"),
+                    .type("array"),
                 fieldWithPath("[].url")
                     .description("url")
-                    .type("String"))))
+                    .type("string"))))
         .andExpect(status().is2xxSuccessful());
   }
 
@@ -208,7 +208,7 @@ public class GenomicsControllerIntegrationTest extends ControllerIntegrationTest
         .andDo(document("genomics/get_genomes",
             responseFields(fieldWithPath("[]")
                 .description("list of downloaded genomes")
-                .type("Array")).andWithPrefix("[].", genomeInformationResponseFields())))
+                .type("array")).andWithPrefix("[].", genomeInformationResponseFields())))
         .andExpect(status().is2xxSuccessful())
         .andReturn().getResponse().getContentAsString();
 
@@ -253,25 +253,25 @@ public class GenomicsControllerIntegrationTest extends ControllerIntegrationTest
   private List<FieldDescriptor> genomeInformationResponseFields() {
     return Arrays.asList(fieldWithPath("downloadProgress")
         .description("download progress (0-100%)")
-        .type("Double"),
+        .type("double"),
         fieldWithPath("geneMapping")
             .description("list of available gene mappings for given genome")
-            .type("Array"),
+            .type("array"),
         fieldWithPath("idObject")
             .description("unique id of genome in minerva")
-            .type("Number"),
+            .type("number"),
         fieldWithPath("localUrl")
             .description("url on minerva where local copy of genome can be accessed")
-            .type("String"),
+            .type("string"),
         fieldWithPath("organism")
             .description("organism identifier")
-            .type("Object"),
+            .type("object"),
         fieldWithPath("organism.resource")
             .description("organism identifier")
-            .type("String"),
+            .type("string"),
         fieldWithPath("organism.type")
             .description("organism identifier type (usually " + MiriamType.TAXONOMY + ")")
-            .type("String"),
+            .type("string"),
         fieldWithPath("organism.annotatorClassName")
             .ignored(),
         fieldWithPath("organism.id")
@@ -280,13 +280,13 @@ public class GenomicsControllerIntegrationTest extends ControllerIntegrationTest
             .ignored(),
         fieldWithPath("sourceUrl")
             .description("genome source url")
-            .type("String"),
+            .type("string"),
         fieldWithPath("type")
             .description("type of genome (database from which it was downloaded)")
-            .type("String"),
+            .type("string"),
         fieldWithPath("version")
             .description("genome version")
-            .type("String"));
+            .type("string"));
   }
 
   @Test

web/src/test/java/lcsb/mapviewer/web/MapControllerIntegrationTest.java

@@ -141,7 +141,7 @@ public class MapControllerIntegrationTest extends ControllerIntegrationTest {
             .optional(),
         subsectionWithPath("[].bounds")
             .description("coordinates and the dimension of the element on the map")
-            .type("Object")
+            .type("object")
             .optional(),
         fieldWithPath("[].hierarchyVisibilityLevel")
             .description("at what zoom level this element becomes visible in hierarchical view")
@@ -153,15 +153,15 @@ public class MapControllerIntegrationTest extends ControllerIntegrationTest {
             .optional(),
         subsectionWithPath("[].synonyms")
             .description("list of synonyms")
-            .type("Array<String>")
+            .type("array<string>")
             .optional(),
         subsectionWithPath("[].formerSymbols")
             .description("list of former symbols")
-            .type("Array<String>")
+            .type("array<string>")
             .optional(),
         subsectionWithPath("[].references")
             .description("list of references")
-            .type("Array<Reference>")
+            .type("array<Reference>")
             .optional(),
         fieldWithPath("[].notes")
             .description("notes and description")
@@ -205,7 +205,7 @@ public class MapControllerIntegrationTest extends ControllerIntegrationTest {
             .optional(),
         subsectionWithPath("[].other")
             .description("list of oher properties")
-            .type("Object")
+            .type("object")
             .optional());
   }
 
@@ -229,11 +229,11 @@ public class MapControllerIntegrationTest extends ControllerIntegrationTest {
             .optional(),
         subsectionWithPath("[].centerPoint")
             .description("center point")
-            .type("Point")
+            .type("point")
             .optional(),
         subsectionWithPath("[].lines")
             .description("list of lines used to draw reaction")
-            .type("Array<Line>")
+            .type("array<line>")
             .optional(),
         fieldWithPath("[].hierarchyVisibilityLevel")
             .description("at what zoom level this element becomes visible in hierarchical view")
@@ -241,19 +241,19 @@ public class MapControllerIntegrationTest extends ControllerIntegrationTest {
             .optional(),
         subsectionWithPath("[].references")
             .description("list of references")
-            .type("Array<Reference>")
+            .type("array<Reference>")
             .optional(),
         subsectionWithPath("[].modifiers")
             .description("list of modifiers")
-            .type("Array<Object>")
+            .type("array<object>")
             .optional(),
         subsectionWithPath("[].reactants")
             .description("list of reactants")
-            .type("Array<Object>")
+            .type("array<object>")
             .optional(),
         subsectionWithPath("[].products")
             .description("list of products")
-            .type("Array<Object>")
+            .type("array<object>")
             .optional(),
         fieldWithPath("[].notes")
             .description("notes and description")
@@ -261,11 +261,11 @@ public class MapControllerIntegrationTest extends ControllerIntegrationTest {
             .optional(),
         fieldWithPath("[].kineticLaw")
             .description("SBML kinetics law")
-            .type("Object")
+            .type("object")
             .optional(),
         subsectionWithPath("[].other")
             .description("list of oher properties")
-            .type("Object")
+            .type("object")
             .optional());
   }
 
@@ -527,7 +527,7 @@ public class MapControllerIntegrationTest extends ControllerIntegrationTest {
             responseFields(
                 fieldWithPath("[]")
                     .description("list of all full search queries that could be used for quering the map")
-                    .type("Array<String>"))))
+                    .type("array<string>"))))
         .andExpect(status().is2xxSuccessful());
   }
 
@@ -569,10 +569,10 @@ public class MapControllerIntegrationTest extends ControllerIntegrationTest {
         fieldWithPath("minZoom").description("minimum zoom level availbale for the map").type("number"),
         fieldWithPath("maxZoom").description("maximum zoom level available for the map").type("number"),
         fieldWithPath("submodelType").description("type of the submap").type("string"),
-        fieldWithPath("authors").description("list of authors").type("Array<Author>"),
-        fieldWithPath("references").description("list of references").type("Array<Reference>"),
+        fieldWithPath("authors").description("list of authors").type("array<Author>"),
+        fieldWithPath("references").description("list of references").type("array<Reference>"),
         fieldWithPath("creationDate").description("creation date").type("timestamp"),
-        fieldWithPath("modificationDates").description("modification dates").type("Array<timestamp>"));
+        fieldWithPath("modificationDates").description("modification dates").type("array<timestamp>"));