add biosample to the gwas api

app/models/Backend.scala

@@ -14,6 +14,7 @@ import models.Helpers._
 import models.db.{QAOTF, QLITAGG, QW2V, SentenceQuery}
 import models.entities.Publication._
 import models.entities.Associations._
+import models.entities.Biosample._
 import models.entities.Configuration._
 import models.entities.DiseaseHPOs._
 import models.entities.Drug._
@@ -142,6 +143,22 @@ class Backend @Inject() (implicit
     esRetriever.getByIds(indexName, ids, fromJsValue[VariantIndex])
   }
 
+  def getBiosample(id: String): Future[Option[Biosample]] = {
+    val indexName = getIndexOrDefault("biosample", Some("biosample"))
+    esRetriever
+      .getByIndexedTermsMust(
+        indexName,
+        Map("biosampleId.keyword" -> Seq(id)),
+        Pagination.mkDefault,
+        fromJsValue[Biosample]
+      )
+      .map {
+        case (Seq(), _) => None
+        case (hits, aggs) =>
+          Some(hits.head)
+      }
+  }
+
   def getStudies(queryArgs: StudyQueryArgs,
                  pagination: Option[Pagination]
   ): Future[IndexedSeq[JsValue]] = {

app/models/entities/Biosample.scala

@@ -0,0 +1,20 @@
+package models.entities
+
+import play.api.Logging
+import play.api.libs.json._
+
+case class Biosample(
+    biosampleId: String,
+    biosampleName: String,
+    description: Option[String],
+    xrefs: Option[Seq[String]],
+    synonyms: Option[Seq[String]],
+    parents: Option[Seq[String]],
+    ancestors: Option[Seq[String]],
+    children: Option[Seq[String]],
+    descendants: Option[Seq[String]]
+)
+
+object Biosample extends Logging {
+  implicit val biosampleF: OFormat[Biosample] = Json.format[Biosample]
+}

app/models/entities/GwasIndex.scala

@@ -5,7 +5,7 @@ import models.gql.Fetchers.{diseasesFetcher, targetsFetcher}
 import play.api.Logging
 import play.api.libs.json.{JsValue, Json, OFormat}
 import models.entities.CredibleSet.credibleSetImp
-import models.gql.Objects.{diseaseImp, targetImp}
+import models.gql.Objects.{diseaseImp, targetImp, biosampleImp}
 import sangria.schema.{
   BooleanType,
   Field,
@@ -76,10 +76,14 @@ object GwasIndex extends Logging {
       }
     ),
     Field(
-      "biosampleFromSourceId",
-      OptionType(StringType),
-      description = Some(""),
-      resolve = js => (js.value \ "biosampleFromSourceId").asOpt[String]
+      "biosample",
+      OptionType(biosampleImp),
+      Some("Biosample"),
+      resolve = js => {
+        val biosampleId = (js.value \ "biosampleFromSourceId").asOpt[String].getOrElse("")
+        logger.info(s"Finding biosample: $biosampleId")
+        js.ctx.getBiosample(biosampleId)
+      }
     ),
     Field(
       "nSamples",

app/models/gql/Objects.scala

@@ -1324,6 +1324,7 @@ object Objects extends Logging {
     )
   implicit val alleleFrequencyImp: ObjectType[Backend, AlleleFrequency] =
     deriveObjectType[Backend, AlleleFrequency]()
+  implicit val biosampleImp: ObjectType[Backend, Biosample] = deriveObjectType[Backend, Biosample]()
   implicit val colocalisationImp: ObjectType[Backend, Colocalisation] =
     deriveObjectType[Backend, Colocalisation](
       ReplaceField(