Fixing ProjectDependenciesCommandFactory to resolve tools

if the package name is different from the dll name

Addresses #2592

TestAssets/TestProjects/AppWithDirectDependencyWithOutputName/Program.cs

@@ -0,0 +1,12 @@
+using System;
+
+namespace ConsoleApplication
+{
+    public class Program
+    {
+        public static void Main(string[] args)
+        {
+            Console.WriteLine("Contains a dependency on a tool whose package name is different from the dll name.");
+        }
+    }
+}