Add clinical sample attributes metadata support

src/main/java/org/cbioportal/file/model/CancerStudyMetadata.java

@@ -6,7 +6,7 @@
 /**
  * Represents metadata for a cancer study.
  */
-public record CancerStudyMetadata(
+public record CancerStudyMetadata (
     /**
      * The cancer type abbreviation, e.g., "brca". This should be the same cancer type as specified in the meta_cancer_type.txt file, if available. The type can be "mixed" for studies with multiple cancer types.
      */
@@ -44,7 +44,7 @@ public record CancerStudyMetadata(
     Optional<String> groups,
 
     /**
-     * Set to 'true' if you would like the "All samples" case list to be generated automatically for you. See also Case lists.
+     * Set to true if you would like the "All samples" case list to be generated automatically for you. See also Case lists.
      */
     @JsonProperty("add_global_case_list")
     Optional<Boolean> addGlobalCaseList,
@@ -59,4 +59,4 @@ public record CancerStudyMetadata(
      */
     @JsonProperty("reference_genome")
     Optional<String> referenceGenome
-) {}
+) implements StudyRelated {}

src/main/java/org/cbioportal/file/model/ClinicalSampleAttributesMetadata.java

@@ -0,0 +1,14 @@
+package org.cbioportal.file.model;
+
+public record ClinicalSampleAttributesMetadata(
+    String cancerStudyIdentifier,
+    String dataFilename
+) implements GenericStudyDataDescriptor {
+    public String geneticAlterationType() {
+        return "CLINICAL";
+    }
+
+    public String datatype() {
+        return "SAMPLE_ATTRIBUTES";
+    }
+}

src/main/java/org/cbioportal/file/model/GenericStudyDataDescriptor.java

@@ -0,0 +1,7 @@
+package org.cbioportal.file.model;
+
+public interface GenericStudyDataDescriptor extends StudyRelated {
+    String geneticAlterationType();
+    String datatype();
+    String dataFilename();
+}

src/main/java/org/cbioportal/file/model/StudyRelated.java

@@ -0,0 +1,5 @@
+package org.cbioportal.file.model;
+
+public interface StudyRelated {
+    String cancerStudyIdentifier();
+}

src/test/java/org/cbioportal/file/export/CancerStudyMetadataWriterTest.java → src/test/java/org/cbioportal/file/export/MetadataWriterTest.java

@@ -1,20 +1,21 @@
 package org.cbioportal.file.export;
 
 import org.cbioportal.file.model.CancerStudyMetadata;
+import org.cbioportal.file.model.ClinicalSampleAttributesMetadata;
 import org.junit.Test;
 
 import java.io.StringWriter;
 import java.util.Optional;
 
 import static org.junit.Assert.assertEquals;
 
-public class CancerStudyMetadataWriterTest {
+public class MetadataWriterTest {
 
     StringWriter output = new StringWriter();
     KeyValueConfigurationWriter writer = new KeyValueConfigurationWriter(output);
 
     @Test
-    public void testAllFields() {
+    public void testCancerStudyMetadataWriter() {
        writer.writeRecord(new CancerStudyMetadata(
             "toc",
             "study_id1",
@@ -41,4 +42,17 @@ public void testAllFields() {
            reference_genome: hg38
            """, output.toString());
     }
+
+    @Test
+    public void testClinicalSampleAttributesMetadataWriter() {
+        writer.writeRecord(new ClinicalSampleAttributesMetadata(
+            "study_id1",
+            "data_file.txt"
+        ));
+
+        assertEquals("""
+           cancer_study_identifier: study_id1
+           data_filename: data_file.txt
+           """, output.toString());
+    }
 }