address some more publishing warnings/errors

Modules/Channels/js/src/main/scala/channels/webrtc/WebRTCConnector.scala

@@ -43,7 +43,7 @@ object WebRTCConnector {
   * Then create a channel directly on peer connection, which will trigger the connection initiation process.
   * Somehow transfer the local session description to a remote peer, and [[updateRemoteDescription]] there.
   * Accepting a remote description will update the local description,
-  * which then needs to be transferred back to the original peer and [[updateLocalDescription]] there should complete the connection.
+  * which then needs to be transferred back to the original peer and [[smartUpdateLocalDescription]] there should complete the connection.
   */
 class WebRTCConnector(configuration: dom.RTCConfiguration) {
 
@@ -83,7 +83,7 @@ class WebRTCConnector(configuration: dom.RTCConfiguration) {
     SessionDescription(peerConnection.localDescription).get
   }
 
-  /** Use [[peerConnection.addIceCandidate]] to apply on remote.
+  /** Use `peerConnection.addIceCandidate` to apply on remote.
     * Once an ICE candidate exists it is also automatically included in the local description, so this is not necessary.
     */
   def iceCandidates: Async[Any, RTCIceCandidate] = Async.fromCallback:

Modules/DTN/shared/src/main/scala/dtn/routing/DirectRouter.scala

@@ -2,6 +2,7 @@ package dtn.routing
 
 import dtn.{DtnPeer, Packet, Sender, WSEroutingClient}
 
+import java.lang
 import java.util.concurrent.ConcurrentHashMap
 import scala.concurrent.ExecutionContext.Implicits.global
 import scala.concurrent.Future
@@ -11,7 +12,8 @@ import scala.concurrent.Future
  */
 
 class DirectRouter(ws: WSEroutingClient) extends BaseRouter(ws: WSEroutingClient) {
-  val delivered = ConcurrentHashMap.newKeySet[String]() // will grow indefinitely as we do not garbage collect here
+  val delivered: ConcurrentHashMap.KeySetView[String, lang.Boolean] =
+    ConcurrentHashMap.newKeySet[String]() // will grow indefinitely as we do not garbage collect here
 
   override def onRequestSenderForBundle(packet: Packet.RequestSenderForBundle)
       : Option[Packet.ResponseSenderForBundle] = {

Modules/Local-first Access Control/src/main/scala/lofi_acl/crypto/X509Util.scala

@@ -80,7 +80,7 @@ object X509Util {
     *
     * @param certificate
     *   The certificate to extract the subject identity from.
-    * @throws CertificateException
+    * @throws java.security.cert.CertificateException
     *   if the validation failed
     */
   @throws[CertificateException]

Modules/Lore/jvm/src/main/scala/lore/cli/Options.scala

@@ -7,7 +7,7 @@ import java.nio.file.Path
 
 /** @param file          Path to a file
   * @param inline        inline sourcecode of a program
-  * @param outputOptions output mode. Can be either [[ToFile]], [[SplitMode]] or [[StdOut]]
+  * @param outputOptions output mode. Can be either [[lore.cli.OutputOptions.ToFile]], [[lore.cli.OutputOptions.SplitMode]] or [[lore.cli.OutputOptions.StdOut]]
   */
 case class Options(file: Option[Path] = None, inline: Option[String] = None, outputOptions: OutputOptions = StdOut) {
 

Modules/Microbenchmarks/src/main/scala/benchmarks/encrdt/BenchmarkRunnerApp.scala

@@ -3,7 +3,7 @@ package benchmarks.encrdt
 import org.openjdk.jmh.results.RunResult
 import org.openjdk.jmh.results.format.ResultFormatType
 import org.openjdk.jmh.runner.Runner
-import org.openjdk.jmh.runner.options.OptionsBuilder
+import org.openjdk.jmh.runner.options.{Options, OptionsBuilder}
 
 import java.nio.file.Paths
 import java.util
@@ -14,7 +14,7 @@ object BenchmarkRunnerApp extends App {
 
   val timeBefore = System.currentTimeMillis()
 
-  val jmhOptions = new OptionsBuilder()
+  val jmhOptions: Options = new OptionsBuilder()
     .include("serializeOnly|encryptOnly")
     .resultFormat(ResultFormatType.CSV)
     .result("benchmarks/results/jmh_benchmark.csv")

Modules/Microbenchmarks/src/main/scala/benchmarks/encrdt/StateBasedUntrustedReplicaSizeBenchmark.scala

@@ -6,10 +6,10 @@ import com.github.plokhotnyuk.jsoniter_scala.core.writeToArray
 import rdts.syntax.DeltaAWLWWMContainer
 import rdts.syntax.DeltaAWLWWMContainer.State
 import rdts.time.VectorClock
-import scala.language.implicitConversions
 
+import scala.language.implicitConversions
 import java.io.PrintWriter
-import java.nio.file.{Files, Paths}
+import java.nio.file.{Files, Path, Paths}
 import scala.language.implicitConversions
 
 object StateBasedUntrustedReplicaSizeBenchmark extends App {
@@ -18,7 +18,7 @@ object StateBasedUntrustedReplicaSizeBenchmark extends App {
   val MAX_TESTED_ELEMENTS  = Math.pow(10, maxElementExponent.toDouble).toInt
   val MAX_PARALLEL_UPDATES = 4
 
-  val outDir = Paths.get("./benchmarks/results/")
+  val outDir: Path = Paths.get("./benchmarks/results/")
   if !outDir.toFile.exists() then
     outDir.toFile.mkdirs()
     ()

Modules/Microbenchmarks/src/main/scala/benchmarks/encrdt/ToDoAppBenchmark.scala

@@ -8,7 +8,7 @@ import com.google.crypto.tink.Aead
 import rdts.syntax.DeltaAWLWWMContainer
 
 import java.io.PrintWriter
-import java.nio.file.{Files, Paths}
+import java.nio.file.{Files, Path, Paths}
 import java.util.UUID
 
 object ToDoAppBenchmark extends App {
@@ -39,7 +39,7 @@ object ToDoAppBenchmark extends App {
     clientReplica = new AlternativeInsecureToDoListClient("client", clientCrdt, intermediaryReplica)
   }
 
-  val csvFileF =
+  val csvFileF: Path =
     if USE_ENCRYPTION then Paths.get("./benchmarks/results/todoapp_benchmark.csv")
     else Paths.get("./benchmarks/results/todoapp_benchmark trusted intermediary.csv")
   Files.createDirectories(csvFileF.getParent)

Modules/Replication/jvm/src/main/scala/replication/dtn/dtn.scala

@@ -23,7 +23,7 @@ def api(using scheme: String = "http"): String =
   val port = 3000
   s"$scheme://$ip:$port"
 
-val client = HttpClient.newBuilder()
+val client: HttpClient = HttpClient.newBuilder()
   .connectTimeout(Duration.ofSeconds(20))
   .build()